GgaINT0036077 @ galGal3
Intron Retention
Gene
ENSGALG00000004587 | RC3H1
Description
NA
Coordinates
chr8:7689051-7693837:+
Coord C1 exon
chr8:7689051-7689166
Coord A exon
chr8:7689167-7690293
Coord C2 exon
chr8:7690294-7693837
Length
1127 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCTCCTCACAACTTTTTCAGCAG
3' ss Score
6.89
Exon sequences
Seq C1 exon
GAAAGCCAGTCTTCACTGGATATAAAAAACAAACTGGGCACCACTAAACAGACAGAAAATGGACAATTAGAACCACAAAGCAAGGTTCCAGCTGAGGACCTCGCACTGGCATTCAG
Seq A exon
GTAAAATGAATACTACAAGCTTTCTTTGCACAACAGGGGAATGGCTTAATTGGGGTCAGACTGTTATATAAATAAATACCCCTTGCCTCATCTTTCTGATGTGGAAGCAACTGCTAGGAAAAGATTGTACAAATCCAATTTTTATAGTGCAAGTGTGAATTAAGGGCCATTTCAACTGATGGGTAGCTAGCTGTACAATAGTTAACACAGCAGAAAAACTGCTGTATTTTTCAGACTAGAAGTCCATCTAGTCAATATTGGATGACTAATAGGGAGGGGTGGGAGATGCACAATGACCATAGAAGAAATCATTATCTGCTGATTTAGTTTCAAATAAATGTTCCAAGTGTGAGGGGGGAGGTCATTCCATCCCAGTACAGTTTGTAATGTGAATGTTGTCTAGGAAGGTACGTAGCTTTGAAACCAAGTTCATTTTTATTAGAAGGCAGTAATTTTTTTTCAGTATAGATTCTAGGATTAGTTTGATACTCAGTTGAAATGAGTTGTTGGCTGGCAGTGCTGGGAAATCTGCAGTGACTATTTTCATTGGCTAAAAGCATCTGCAGATACTCACATGTTTTCAGAAAGGCTCAAATGCTGCAGATGCTTCGTTGAGTCAAGGCTACCTTACTTCATGCAAGTGGTTTGGAACCTGCATATTTATTCTGAAAGTGTATTTATTCAGAAAATGTATCCTTTTCAGTAGTTTATGAAGTCCACACTTCTTATAGCCACTCTTAGCTCTCCTTTGAACTATTAGACTGAGACCTCTGAATGGAAACTTTCAGCCGCAATTTCAGTACGAAACCCTGAAAGTAATGAATTTGAAACAACTTCCATATATCCATGCATGTTAAATATTCTCGAATGAATGTGTGTCTCATGCAGAACTTACCTGGAATACTAAAGGCAGTTGGTTTTGTTTGTTTTCATATAGTCTTCTGTCATCTTGATGAGATCTGAAGCGTAGCAGACAGCCTATTCGTTGTACAGGGCTTGTGTTTACACATGTTCAGAACTGCTCATTGAGGTGCTACAACAAGTATTGAAGTCCTTTCACTTAAACTTTCAAAGCTCAGTAATAACTCCTCTTCATCTCATCTCCTTTCTCCTCACAACTTTTTCAG
Seq C2 exon
CAGCGATGTTCCAAATGGATCGGCCTTGACACAAGAAAACATCAGCCTCCTGTCAAACAAGGCAGCATCTCTCAGCCTGTCGGAGGACCCGGAGGGAGGAGGAGACAGCCAAGATTCCCAGAGGATGGGTGTTACACCCACATCTGCTCCATGAAGTGAGGCCAACGTACCCCAGAATTCCTTTTGCTGGGGTGTTGGTAGCTTCCATCACGTTTTATTCCAGGAGTGATTGGAGAAACCCAAGAGCAACAGCTGTAGCAGAGCAGCAGGTCCAGAGGCAATGTGCACAAACACAAATACTAGAAACAAATCCTGCACATAGTTCACATTAACGCATTTTTTAATTAAAAAAAAAAATGAAAATTAGCAGTATCTGCAAGCGATTCAAATTAAATTTGTTTTTGTTCTGTGAATGAACTTTATTTTAATAACTTTGGACGCCTTGGGTCCCAGGGCTTAAAAAAAGAAAAGATATTATATATATACTCTGTTTGATTAATTGTATGATCTTAATGAAGTAGGTTTTTTCTTTTTTTTTTTTTTTGGTATTATTACATACCCAGTGCATAATTCCTTATCACTTTAATTTCTTGGCAAATAAAGCAACCTGGCCACTTCCTTTGTATGATCTAAAGGTAAATGAGGAAGGAGAGCTGTAGAGTAGCTCTGAATTGCAGTGTCAGAAGATGTGCAGCAAATTTAATTCGTAGAACAATTTCTCCCCTTGTCTGTAGGAACTGAGCCCAGCTTGTGCGAGACCTATTCTCCTGTAAGTTTAAACGTGACAAAATCTTTTTCAATACAACAGGTGCAGTCCAAAGTGTAAGCTCCTGCACAGCATGTGTGATTAAAACAAGAACAAATGATATGTCAGACATTTATTATTTTTATTTGAAGATTGCTGTCCTTCTTATTGTTTTGTTTTTTTTTTGGTGGAGTTCAGCGGAATGCAAACAGATATACCACAGCATGGGTACTTCTGGAGCTGTTTAGCTGAGGCTCAGGGTAGGGAGGCTGAACTAACCAGTGAAGGTCATGCAGCGTTAGTGAGGCAAGGTCTCTAGAAATAGCAAGCAGGGAGAATATAAGGCTGTGCAGTTGCTGAAAGGATGTTAACTGCAGATGAACTGCTGAACTGTATTTGGTCACGCAGTGTTGTTTTTTTTTTTTTTTGATTGGTTGTTTTTTCCCACTTTTAAAATAAGCTTGCCCAGAGTGCATACAGTGAGGTTAACGCAGAGGGATTCACTGACCACTCTGCTTTCTTAAACAGGTCTTTTGTGTGCACCTCCCTCTCAGCAATTCTTGCCTTTGTTATTTCTTCATTGTTATTTTATTATTAAACATATAATAATGATCTTTTTTTTTTTTCTGCTGGTGGCACATCAGATGTTTAATTGTGATGCTGTTTTGAGTGCCTTTCACTGACAGAGATGTCATCTTTGATTTGTGCACATCAGCAATGTTGGCCTCTCAAAAACAGAGGAGAATTGTTTTTTCTCTTTGAAAGTTCCCATTGTTCAGGGTCTGTGTGTCACAGACCTCAGAATCAATTTGCAGTTTGTCTGTCACTGCTGCACTGAATCCTTCCCAGATGCCTATTTCATAGGAGAAAAGCTGCATCAAAAATTCCACTTCAGGTGCAGCGTTGATCCTATCAGTTATAGTGAAAAGTAAATTTGGTTTGAGAGGCCTAGTGTGCTACTTCTTCTAGAGTAGATGCTTTGTAAGCATGAGCTGGAGGAACCATAAGCCTTTCTGGATGTTTTCTTTCAAGAAACAAGGGACTTGTTCTTGCTGCACATTTTTTGACTTTACTGGCATGCGCTGGGGTGAGACCCTGTATATGAAGAACTTTATGGAGACTGATTTTTGAAGTGCTACTCCCTCTGCACCTTCTTGGCCTGTTGTCGTTTTTTTTCTTTCTGGGTTAGACTACTAAATCAGAAAGCACTGGTTATGTAATAAATTACTGCATTGCTTTGGTTGGGTAAAGCAAGAGTTAATAATTTTCTTGTTTGTTTGTTTGTTTTTTTTCCTTAACCTTAACTCCTGCTGAGGTCATAGCAACCTTGGGCTAAGCTTTGCATTCATCATACTGTTAAATAAAACAAAATATGGGGGGTGGGAGGGGATACAGTCCCACTGTTGCCTACCAGTAGGAGAGTCCAAACAGAAGACTCTTTTGAGTAGCAATTATTTAATTTGCCCAGTCAAGGCACCGCGTTTGTATACTATTTCACATTGAATTTGATTATGCCCTACAGACCTGGCTGGTCAAGGATTTGATACACATATTGGCTTGGGATTCGAGCTTTCTTTTTTATTTAAATAAAAATTTATATATAAATATATATATACATATATACATAGTTATATCTGTATATATATTGGGTATGTTTTAAGAATTTTTTCGCATGAGCGCAGCTGTTTTGATCAGATATCTGGGAGGTAGAAGCACTGAGTGAAAATAAAGACATTTTTCAGCACACACCCATGTTCTCCATATCTTCACGCATATTTACTTTGCTCTTAGTTGAGCTTCAGCCTCTTAACTGCTAAGAGTAGTTTTAAAGCATGCTTTTATTTTTTCTTTGACCCCTCTTAACTTTTCGCAAAGAACCATCTTGGCGCTAGAACTTTGCCAGCCCCTATCCATCCACATCTCCTACTTGAAGCCTAGCAGCACAGCCATTCCCTTGGCGCAGAGCAGAGCTAGGCTGATGCAGTTTAGAGCCTGGCAGGTCTGTTCCTCCCTTCTCTGCTCTGAGTATGGTGAGGAGCTACACGTTCCACGGCGCTGTGTCCTCCCATTCCTGAGCACAGAGCTCCACCGTCAGGTCAGCCTGCTCTTCCTTGGTTTTAGTGTACTTCCTGCTGTGTCTTTATCAACACAGGGAGCTCGTTTTTGTTGAGATAATTAGTGCAATATTCTCACCTAGGACGACAAGCCCAGAAGGTATCTATTGTTAATTGCAATAATTTTTATGTGAACTCAATGTTCAGGAACGGTTATGATATGTTTGGAACTACAGATTTCTTTTCAACACTAGTAAGAAAATCTGGAGGAGCAGAGAACTTTGTTTTACCTTTTATTACTTGTGCTAGCTAGTTGCCTTTCCGTATTAGGAATTACTCCTTTTCTCTTTGCTTTTGCTCCTTGGAGGTATTCTGTTAGCAGTAAATCTTTCAGATTGCCTCTACTGTCCTACATATAGCGAATGCTTCCAAAACATGGATTAGAAGGGAGACCTTATTGTTGTTACTTCTCCTGTGTCCAGCTCTCCGTGCTGTACTTTGTGCGTAGTGTCCTTGTTGTGATCAATGTGTCCAGGTGAATGGCCTCTTTGCCCAGTATTATAGTTTGGCTTGTTAGATAGTTTGTTTAATATCTACCAGCAATATTGATTTCTGTTATTTCCCCCCTCCTCTTGTCCTTTCTTTCTTTCTCTGGAAAAACTTAGTTGATGAAACAGTCAAATAGCAATGGATAGTGCATGTTTTTAATTCTTTCTGAAAGCTGCACCTAAAATTTTGACTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004587:ENSGALT00000039453:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACCACAAAGCAAGGTTCCA
R:
TGTGTTTGTGCACATTGCCTC
Band lengths:
343-1470
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]