Transcript Detail IRES Map

Queried Transcript

Transcript Info Conservation Conditional Translation Efficiency
Accession Genome
Location
Trascribed
Gene
5'UTR CDS Stop Codon 3'UTR Average
Phastcon
Score
ER stressed Normal ER/Normal
Ratio
NM_001184892 chr1: +
(location)
FLAD1 843 bps
(seq)
882 bps
(seq)
1726 ..1729
(TAA)
98 bps
(seq)
0.356 0.119 0.117 1.017
(q = 1.000)

Identified Putative IRES Elements

* indicates statistical significance: (Thresholds selected on a ground truth dataset)
1. Conservation Score q-value < 1.000E-6
2. RPI Score q-value < 1.000E-6.
3. Ratio (difference) q-value < 1.000E-6.

IRES Info Conservation Conditional Translation Efficiency
Translation Initiation-related Info Summary for the IRES
Putative IRES Identifying Tools Average
Phastcon Score
(ref)
ER Stressed Normal ER/Normal
Ratio
(ref)
# of eTIS
(ref)
# of nTIS
(ref)
# of uORF
(ref)
# of ITAF
Binding Events
(ref)
RPI
Significance
IRES
activity

(ref)
# of Literature
Evidence
IRES 1
754..843
(seq)
(location)
UTRscan
0.021
(q = 1.000)
0.000 0.016 0.000
(q = 1.000)
0 1 2 1 q = 1.808E-26* background
expression
0

IRES-Translation Initiation Interaction Map

(TIS refers to the main ORF initiating codon)

Detailed Translation Initiation-Related Data

Phastcon Conservation Scores (Among 19 Mammalian Species)

Interconnected
IRES
Transcript
Location
Chromosomal
Location
Conservation
Score
IRES 1 (754..843) 754 chr1 (+): 154987940 0.000
IRES 1 (754..843) 755 chr1 (+): 154987941 0.002
IRES 1 (754..843) 756 chr1 (+): 154987942 0.001
IRES 1 (754..843) 757 chr1 (+): 154987943 0.000
IRES 1 (754..843) 758 chr1 (+): 154987944 0.001
IRES 1 (754..843) 759 chr1 (+): 154987945 0.004
IRES 1 (754..843) 760 chr1 (+): 154987946 0.008
IRES 1 (754..843) 761 chr1 (+): 154987947 0.009
IRES 1 (754..843) 762 chr1 (+): 154987948 0.010
IRES 1 (754..843) 763 chr1 (+): 154987949 0.007
IRES 1 (754..843) 764 chr1 (+): 154987950 0.001
IRES 1 (754..843) 765 chr1 (+): 154987951 0.001
IRES 1 (754..843) 766 chr1 (+): 154987952 0.000
IRES 1 (754..843) 767 chr1 (+): 154987953 0.001
IRES 1 (754..843) 768 chr1 (+): 154987954 0.001
IRES 1 (754..843) 769 chr1 (+): 154987955 0.000
IRES 1 (754..843) 770 chr1 (+): 154987956 0.000
IRES 1 (754..843) 771 chr1 (+): 154987957 0.000
IRES 1 (754..843) 772 chr1 (+): 154987958 0.000
IRES 1 (754..843) 773 chr1 (+): 154987959 0.000
IRES 1 (754..843) 774 chr1 (+): 154987960 0.001
IRES 1 (754..843) 775 chr1 (+): 154987961 0.005
IRES 1 (754..843) 776 chr1 (+): 154987962 0.095
IRES 1 (754..843) 777 chr1 (+): 154987963 0.104
IRES 1 (754..843) 778 chr1 (+): 154987964 0.106
IRES 1 (754..843) 779 chr1 (+): 154987965 0.097
IRES 1 (754..843) 780 chr1 (+): 154987966 0.104
IRES 1 (754..843) 781 chr1 (+): 154987967 0.100
IRES 1 (754..843) 782 chr1 (+): 154987968 0.100
IRES 1 (754..843) 783 chr1 (+): 154987969 0.123
IRES 1 (754..843) 784 chr1 (+): 154987970 0.128
IRES 1 (754..843) 785 chr1 (+): 154987971 0.123
IRES 1 (754..843) 786 chr1 (+): 154987972 0.104
IRES 1 (754..843) 787 chr1 (+): 154987973 0.060
IRES 1 (754..843) 788 chr1 (+): 154987974 0.037
IRES 1 (754..843) 789 chr1 (+): 154987975 0.023
IRES 1 (754..843) 790 chr1 (+): 154987976 0.021
IRES 1 (754..843) 791 chr1 (+): 154987977 0.021
IRES 1 (754..843) 792 chr1 (+): 154987978 0.022
IRES 1 (754..843) 793 chr1 (+): 154987979 0.026
IRES 1 (754..843) 794 chr1 (+): 154987980 0.032
IRES 1 (754..843) 795 chr1 (+): 154987981 0.033
IRES 1 (754..843) 796 chr1 (+): 154987982 0.027
IRES 1 (754..843) 797 chr1 (+): 154987983 0.025
IRES 1 (754..843) 798 chr1 (+): 154987984 0.018
IRES 1 (754..843) 799 chr1 (+): 154987985 0.004
IRES 1 (754..843) 800 chr1 (+): 154987986 0.002
IRES 1 (754..843) 801 chr1 (+): 154987987 0.004
IRES 1 (754..843) 802 chr1 (+): 154987988 0.004
IRES 1 (754..843) 803 chr1 (+): 154987989 0.001
IRES 1 (754..843) 804 chr1 (+): 154987990 0.001
IRES 1 (754..843) 805 chr1 (+): 154987991 0.000
IRES 1 (754..843) 806 chr1 (+): 154987992 0.000
IRES 1 (754..843) 807 chr1 (+): 154987993 0.001
IRES 1 (754..843) 808 chr1 (+): 154987994 0.000
IRES 1 (754..843) 809 chr1 (+): 154987995 0.001
IRES 1 (754..843) 810 chr1 (+): 154987996 0.002
IRES 1 (754..843) 811 chr1 (+): 154987997 0.003
IRES 1 (754..843) 812 chr1 (+): 154987998 0.005
IRES 1 (754..843) 813 chr1 (+): 154987999 0.015
IRES 1 (754..843) 814 chr1 (+): 154988000 0.030
IRES 1 (754..843) 815 chr1 (+): 154988001 0.035
IRES 1 (754..843) 816 chr1 (+): 154988002 0.033
IRES 1 (754..843) 817 chr1 (+): 154988003 0.022
IRES 1 (754..843) 818 chr1 (+): 154988004 0.012
IRES 1 (754..843) 819 chr1 (+): 154988005 0.022
IRES 1 (754..843) 820 chr1 (+): 154988006 0.025
IRES 1 (754..843) 821 chr1 (+): 154988007 0.024
IRES 1 (754..843) 822 chr1 (+): 154988008 0.017
IRES 1 (754..843) 823 chr1 (+): 154988009 0.012
IRES 1 (754..843) 824 chr1 (+): 154988010 0.014
IRES 1 (754..843) 825 chr1 (+): 154988011 0.012
IRES 1 (754..843) 826 chr1 (+): 154988012 0.002
IRES 1 (754..843) 827 chr1 (+): 154988013 0.000
IRES 1 (754..843) 828 chr1 (+): 154988014 0.001
IRES 1 (754..843) 829 chr1 (+): 154988015 0.001
IRES 1 (754..843) 830 chr1 (+): 154988016 0.002
IRES 1 (754..843) 831 chr1 (+): 154988017 0.004
IRES 1 (754..843) 832 chr1 (+): 154988018 0.004
IRES 1 (754..843) 833 chr1 (+): 154988019 0.004
IRES 1 (754..843) 834 chr1 (+): 154988020 0.004
IRES 1 (754..843) 835 chr1 (+): 154988021 0.002
IRES 1 (754..843) 836 chr1 (+): 154988022 0.001
IRES 1 (754..843) 837 chr1 (+): 154988023 0.001
IRES 1 (754..843) 838 chr1 (+): 154988024 0.002
IRES 1 (754..843) 839 chr1 (+): 154988025 0.004
IRES 1 (754..843) 840 chr1 (+): 154988026 0.003
IRES 1 (754..843) 841 chr1 (+): 154988027 0.002
IRES 1 (754..843) 842 chr1 (+): 154988028 0.004
IRES 1 (754..843) 843 chr1 (+): 154988029 0.006

Potential IRES Structural Form

IRES 1 (754.. 843)

Best Predicted IRES Structural Form:
.((((((....(((....)))...)))))).(((((((((....)))))).)))..(((.....((((((....)))).))...)))...


Predicted by: locaRNA


Structural RPI Interpretability Significance: q = 1.808E-26*




(Visualization)

Conditional Translation Activity

ER-Stressed Ribisome Profiling (TM-treated)

Interconnected
IRES
Transcript
Location
Chromosomal
Location
Stressed Translation
Activity
IRES 1 (754..843) 754 chr1 (+): 154987940 0
IRES 1 (754..843) 755 chr1 (+): 154987941 0
IRES 1 (754..843) 756 chr1 (+): 154987942 0
IRES 1 (754..843) 757 chr1 (+): 154987943 0
IRES 1 (754..843) 758 chr1 (+): 154987944 0
IRES 1 (754..843) 759 chr1 (+): 154987945 0
IRES 1 (754..843) 760 chr1 (+): 154987946 0
IRES 1 (754..843) 761 chr1 (+): 154987947 0
IRES 1 (754..843) 762 chr1 (+): 154987948 0
IRES 1 (754..843) 763 chr1 (+): 154987949 0
IRES 1 (754..843) 764 chr1 (+): 154987950 0
IRES 1 (754..843) 765 chr1 (+): 154987951 0
IRES 1 (754..843) 766 chr1 (+): 154987952 0
IRES 1 (754..843) 767 chr1 (+): 154987953 0
IRES 1 (754..843) 768 chr1 (+): 154987954 0
IRES 1 (754..843) 769 chr1 (+): 154987955 0
IRES 1 (754..843) 770 chr1 (+): 154987956 0
IRES 1 (754..843) 771 chr1 (+): 154987957 0
IRES 1 (754..843) 772 chr1 (+): 154987958 0
IRES 1 (754..843) 773 chr1 (+): 154987959 0
IRES 1 (754..843) 774 chr1 (+): 154987960 0
IRES 1 (754..843) 775 chr1 (+): 154987961 0
IRES 1 (754..843) 776 chr1 (+): 154987962 0
IRES 1 (754..843) 777 chr1 (+): 154987963 0
IRES 1 (754..843) 778 chr1 (+): 154987964 0
IRES 1 (754..843) 779 chr1 (+): 154987965 0
IRES 1 (754..843) 780 chr1 (+): 154987966 0
IRES 1 (754..843) 781 chr1 (+): 154987967 0
IRES 1 (754..843) 782 chr1 (+): 154987968 0
IRES 1 (754..843) 783 chr1 (+): 154987969 0
IRES 1 (754..843) 784 chr1 (+): 154987970 0
IRES 1 (754..843) 785 chr1 (+): 154987971 0
IRES 1 (754..843) 786 chr1 (+): 154987972 0
IRES 1 (754..843) 787 chr1 (+): 154987973 0
IRES 1 (754..843) 788 chr1 (+): 154987974 0
IRES 1 (754..843) 789 chr1 (+): 154987975 0
IRES 1 (754..843) 790 chr1 (+): 154987976 0
IRES 1 (754..843) 791 chr1 (+): 154987977 0
IRES 1 (754..843) 792 chr1 (+): 154987978 0
IRES 1 (754..843) 793 chr1 (+): 154987979 0
IRES 1 (754..843) 794 chr1 (+): 154987980 0
IRES 1 (754..843) 795 chr1 (+): 154987981 0
IRES 1 (754..843) 796 chr1 (+): 154987982 0
IRES 1 (754..843) 797 chr1 (+): 154987983 0
IRES 1 (754..843) 798 chr1 (+): 154987984 0
IRES 1 (754..843) 799 chr1 (+): 154987985 0
IRES 1 (754..843) 800 chr1 (+): 154987986 0
IRES 1 (754..843) 801 chr1 (+): 154987987 0
IRES 1 (754..843) 802 chr1 (+): 154987988 0
IRES 1 (754..843) 803 chr1 (+): 154987989 0
IRES 1 (754..843) 804 chr1 (+): 154987990 0
IRES 1 (754..843) 805 chr1 (+): 154987991 0
IRES 1 (754..843) 806 chr1 (+): 154987992 0
IRES 1 (754..843) 807 chr1 (+): 154987993 0
IRES 1 (754..843) 808 chr1 (+): 154987994 0
IRES 1 (754..843) 809 chr1 (+): 154987995 0
IRES 1 (754..843) 810 chr1 (+): 154987996 0
IRES 1 (754..843) 811 chr1 (+): 154987997 0
IRES 1 (754..843) 812 chr1 (+): 154987998 0
IRES 1 (754..843) 813 chr1 (+): 154987999 0
IRES 1 (754..843) 814 chr1 (+): 154988000 0
IRES 1 (754..843) 815 chr1 (+): 154988001 0
IRES 1 (754..843) 816 chr1 (+): 154988002 0
IRES 1 (754..843) 817 chr1 (+): 154988003 0
IRES 1 (754..843) 818 chr1 (+): 154988004 0
IRES 1 (754..843) 819 chr1 (+): 154988005 0
IRES 1 (754..843) 820 chr1 (+): 154988006 0
IRES 1 (754..843) 821 chr1 (+): 154988007 0
IRES 1 (754..843) 822 chr1 (+): 154988008 0
IRES 1 (754..843) 823 chr1 (+): 154988009 0
IRES 1 (754..843) 824 chr1 (+): 154988010 0
IRES 1 (754..843) 825 chr1 (+): 154988011 0
IRES 1 (754..843) 826 chr1 (+): 154988012 0
IRES 1 (754..843) 827 chr1 (+): 154988013 0
IRES 1 (754..843) 828 chr1 (+): 154988014 0
IRES 1 (754..843) 829 chr1 (+): 154988015 0
IRES 1 (754..843) 830 chr1 (+): 154988016 0
IRES 1 (754..843) 831 chr1 (+): 154988017 0
IRES 1 (754..843) 832 chr1 (+): 154988018 0
IRES 1 (754..843) 833 chr1 (+): 154988019 0
IRES 1 (754..843) 834 chr1 (+): 154988020 0
IRES 1 (754..843) 835 chr1 (+): 154988021 0
IRES 1 (754..843) 836 chr1 (+): 154988022 0
IRES 1 (754..843) 837 chr1 (+): 154988023 0
IRES 1 (754..843) 838 chr1 (+): 154988024 0
IRES 1 (754..843) 839 chr1 (+): 154988025 0
IRES 1 (754..843) 840 chr1 (+): 154988026 0
IRES 1 (754..843) 841 chr1 (+): 154988027 0
IRES 1 (754..843) 842 chr1 (+): 154988028 0
IRES 1 (754..843) 843 chr1 (+): 154988029 0

Normal Ribisome Profiling (TM-untreaed)

Interconnected
IRES
Transcript
Location
Chromosomal
Location
Normal Translation
Activity
IRES 1 (754..843) 754 chr1 (+): 154987940 0.0357428544672
IRES 1 (754..843) 755 chr1 (+): 154987941 0.0357428544672
IRES 1 (754..843) 756 chr1 (+): 154987942 0.0357428544672
IRES 1 (754..843) 757 chr1 (+): 154987943 0.0357428544672
IRES 1 (754..843) 758 chr1 (+): 154987944 0.0357428544672
IRES 1 (754..843) 759 chr1 (+): 154987945 0.0357428544672
IRES 1 (754..843) 760 chr1 (+): 154987946 0.0357428544672
IRES 1 (754..843) 761 chr1 (+): 154987947 0.0357428544672
IRES 1 (754..843) 762 chr1 (+): 154987948 0.0357428544672
IRES 1 (754..843) 763 chr1 (+): 154987949 0.0357428544672
IRES 1 (754..843) 764 chr1 (+): 154987950 0.0357428544672
IRES 1 (754..843) 765 chr1 (+): 154987951 0.0357428544672
IRES 1 (754..843) 766 chr1 (+): 154987952 0.0357428544672
IRES 1 (754..843) 767 chr1 (+): 154987953 0.0357428544672
IRES 1 (754..843) 768 chr1 (+): 154987954 0.0357428544672
IRES 1 (754..843) 769 chr1 (+): 154987955 0.0357428544672
IRES 1 (754..843) 770 chr1 (+): 154987956 0.0357428544672
IRES 1 (754..843) 771 chr1 (+): 154987957 0.0357428544672
IRES 1 (754..843) 772 chr1 (+): 154987958 0.0357428544672
IRES 1 (754..843) 773 chr1 (+): 154987959 0.0357428544672
IRES 1 (754..843) 774 chr1 (+): 154987960 0.0357428544672
IRES 1 (754..843) 775 chr1 (+): 154987961 0.0357428544672
IRES 1 (754..843) 776 chr1 (+): 154987962 0.0357428544672
IRES 1 (754..843) 777 chr1 (+): 154987963 0.0357428544672
IRES 1 (754..843) 778 chr1 (+): 154987964 0.0357428544672
IRES 1 (754..843) 779 chr1 (+): 154987965 0.0357428544672
IRES 1 (754..843) 780 chr1 (+): 154987966 0.0357428544672
IRES 1 (754..843) 781 chr1 (+): 154987967 0
IRES 1 (754..843) 782 chr1 (+): 154987968 0
IRES 1 (754..843) 783 chr1 (+): 154987969 0
IRES 1 (754..843) 784 chr1 (+): 154987970 0
IRES 1 (754..843) 785 chr1 (+): 154987971 0
IRES 1 (754..843) 786 chr1 (+): 154987972 0
IRES 1 (754..843) 787 chr1 (+): 154987973 0
IRES 1 (754..843) 788 chr1 (+): 154987974 0
IRES 1 (754..843) 789 chr1 (+): 154987975 0
IRES 1 (754..843) 790 chr1 (+): 154987976 0
IRES 1 (754..843) 791 chr1 (+): 154987977 0
IRES 1 (754..843) 792 chr1 (+): 154987978 0
IRES 1 (754..843) 793 chr1 (+): 154987979 0
IRES 1 (754..843) 794 chr1 (+): 154987980 0
IRES 1 (754..843) 795 chr1 (+): 154987981 0
IRES 1 (754..843) 796 chr1 (+): 154987982 0
IRES 1 (754..843) 797 chr1 (+): 154987983 0
IRES 1 (754..843) 798 chr1 (+): 154987984 0
IRES 1 (754..843) 799 chr1 (+): 154987985 0
IRES 1 (754..843) 800 chr1 (+): 154987986 0
IRES 1 (754..843) 801 chr1 (+): 154987987 0
IRES 1 (754..843) 802 chr1 (+): 154987988 0
IRES 1 (754..843) 803 chr1 (+): 154987989 0
IRES 1 (754..843) 804 chr1 (+): 154987990 0
IRES 1 (754..843) 805 chr1 (+): 154987991 0
IRES 1 (754..843) 806 chr1 (+): 154987992 0
IRES 1 (754..843) 807 chr1 (+): 154987993 0
IRES 1 (754..843) 808 chr1 (+): 154987994 0
IRES 1 (754..843) 809 chr1 (+): 154987995 0
IRES 1 (754..843) 810 chr1 (+): 154987996 0
IRES 1 (754..843) 811 chr1 (+): 154987997 0
IRES 1 (754..843) 812 chr1 (+): 154987998 0
IRES 1 (754..843) 813 chr1 (+): 154987999 0
IRES 1 (754..843) 814 chr1 (+): 154988000 0
IRES 1 (754..843) 815 chr1 (+): 154988001 0
IRES 1 (754..843) 816 chr1 (+): 154988002 0
IRES 1 (754..843) 817 chr1 (+): 154988003 0
IRES 1 (754..843) 818 chr1 (+): 154988004 0
IRES 1 (754..843) 819 chr1 (+): 154988005 0
IRES 1 (754..843) 820 chr1 (+): 154988006 0
IRES 1 (754..843) 821 chr1 (+): 154988007 0
IRES 1 (754..843) 822 chr1 (+): 154988008 0
IRES 1 (754..843) 823 chr1 (+): 154988009 0
IRES 1 (754..843) 824 chr1 (+): 154988010 0
IRES 1 (754..843) 825 chr1 (+): 154988011 0
IRES 1 (754..843) 826 chr1 (+): 154988012 0
IRES 1 (754..843) 827 chr1 (+): 154988013 0
IRES 1 (754..843) 828 chr1 (+): 154988014 0
IRES 1 (754..843) 829 chr1 (+): 154988015 0
IRES 1 (754..843) 830 chr1 (+): 154988016 0
IRES 1 (754..843) 831 chr1 (+): 154988017 0.0357428544672
IRES 1 (754..843) 832 chr1 (+): 154988018 0.0357428544672
IRES 1 (754..843) 833 chr1 (+): 154988019 0.0357428544672
IRES 1 (754..843) 834 chr1 (+): 154988020 0.0357428544672
IRES 1 (754..843) 835 chr1 (+): 154988021 0.0357428544672
IRES 1 (754..843) 836 chr1 (+): 154988022 0.0357428544672
IRES 1 (754..843) 837 chr1 (+): 154988023 0.0357428544672
IRES 1 (754..843) 838 chr1 (+): 154988024 0.0357428544672
IRES 1 (754..843) 839 chr1 (+): 154988025 0.0357428544672
IRES 1 (754..843) 840 chr1 (+): 154988026 0.0357428544672
IRES 1 (754..843) 841 chr1 (+): 154988027 0.0357428544672
IRES 1 (754..843) 842 chr1 (+): 154988028 0.0357428544672
IRES 1 (754..843) 843 chr1 (+): 154988029 0.0357428544672

Experimentally-Probed TIS (eTIS)

Interconnected IRES TIS Transcript
Location
TIS Chromosomal
Location
Codon

Predicted Non-canonical TIS (nTIS)

Interconnected IRES TIS Transcript
Location
TIS Chromosomal
Location
Non-canonical
Start Codon
Confidence
IRES 1 (754..843) 754..756 chr1 (+) : 154987940 - 154987942.
AUG 1

uORF

Interconnected
IRES
uORF Transcript
Location
uORF Chromosomal
Location
uORF Sequence Sequence
IRES 1 (754..843) 611..691 chr1 (+) : 154987797 - 154987877.
81 bps (seq) AUGUGGUGGCACGCGCCUGUAGUCCCAGCUACUCGGAAGGCUGGGGUGGCCCUUGAAGCCAGGAGGUUGAGGCUGCAGUGA
IRES 1 (754..843) 754..801 chr1 (+) : 154987940 - 154987987.
48 bps (seq) AUGGAUUUUCCCACUCUUGUGUCCAGUCCAGGCCCCUCAGCAGCCUGA

ITAF Binding Events

Interconnected
IRES
ITAF Type ITAF Transcript
Location
ITAF Chromosomal
Location
ITAF
Sequence
Sequence Identified
Score
IRES 1 (754..843) eIF4A3 (HITS CLIP, Hela cells replicate 1) 796..825 chr1 (+) : 154987982 - 154988011.
30 bps (seq) GCCUGAGGUGGUGUCCUUCAAAGAGCAGAG 2

IRES Activity Measurements

Interconnected
IRES
IRES
Activity
Promoter
Activity
Splicing
Activity
Matched
Transcript
Location
Matched Transcript Sequence Matched Chromosomal
Location
Designed
Human Oligo
Sequence
Designed Oligo Sequence BLASTN
Query Cover
BLASTN
Percent Identity
IRES 1 (754..843) background
expression
0 NaN 670..843 (seq) CAGGAGGTTGAGGCTGCAGTGAACTGTGACTGAGCCACTATACTCCAGCCTGGGTGACAGAGACCCAGCTTTAAAACCAAACAAATGGATTTTCCCACTCTTGTGTCCAGTCCAGGCCCCTCAGCAGCCTGAGGTGGTGTCCTTCAAAGAGCAGAGCACTGCATCATCAGGTGG chr1 (+) : 154987856 - 154988029.
174 nts (seq) CAGGAGGTTGAGGCTGCAGTGAACTGTGACTGAGCCACTATACTCCAGCCTGGGTGACAGAGACCCAGCTTTAAAACCAAACAAATGGATTTTCCCACTCTTGTGTCCAGTCCAGGCCCCTCAGCAGCCTGAGGTGGTGTCCTTCAAAGAGCAGAGCACTGCATCATCAGGTGG 100.00% 100.00%

IRES Elements Verified in the Literature

Interconnected
IRES
Matched
Transcript
Location
Matched Transcript Sequence Matched Chromosomal
Location
Literature
Verified Sequence
Verified Sequence BLASTN
Query Cover
BLASTN
Percent Identity
Reference

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