GgaINT0041343 @ galGal3
Intron Retention
Gene
ENSGALG00000003135 | Q90717_CHICK
Description
NA
Coordinates
chr6:10043911-10045958:+
Coord C1 exon
chr6:10043911-10044096
Coord A exon
chr6:10044097-10045859
Coord C2 exon
chr6:10045860-10045958
Length
1763 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TTGTTTGTTTGTTTTTCCAGAGT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GACGGTTTCACACCTTTGGCAGTAGCTTTACAGCAAGGTCATGACCAGGTGGTTTCACTGTTGCTTGAAAATGATACAAAAGGAAAAGTCCGTCTTCCTGCTCTTCACATCGCTGCTCGGAAGGATGATACGAAGGCAGCGGCTCTGCTCCTGCAGAATGACCACAATGCTGATGTTGAGTCAAAG
Seq A exon
GTCAGTTGTAAGGGGTTTGATGCTGTTAAGTGCTGAGCACGTCTTGTGTCCAGTGAAGATCTCCCTTTATTAAAGTGTTTGGCTTATGAGTTGCACGTAACTTTCTCCTATAGCTTGTGACTAAAAGTATTGTTTCATTAGCTTCCCTTGCCTCTTCTTTTTCCTCACTCCCTTTTTGTTTGAATCAGGGTTAACTTCTCTTGTAGATACTTTCAAATGGAAAATAAAAGCAAAATATTACTACAGTCATTCTCTTGAAAATGGAAGCCACTGTTGAGGTGGTCTGCTAGAGAGACCATACAATTAAGTCATTTGATTAGCTGTTTGTGAAATTGCCTCTTTAAGAACTCTGATAAACATGTAACAATTAAAGCTCAAAATTCTCAATCATTCAGCTTCCATTCAGTCAAGCTTTCTTTGTGCCAGTTGTGCTGTCGTCTGAGCTGCCATGCCACGTAGCAATCATGAAGCTTTTTGCATCCATATCACCAGTGGTGAACTAACCGTTCATTTTTTCCCCCTCTTTGCTTCCAAATGTGTTAACCTAGATGATGGTGAATAGAACAACAGAGGTATATATAAATATATATATGCATCATCACTCCTCCATGACTTAGTGCTGCTGCATCATATTTTCCTCCTCCTTGTTGCATTGCCTTCTATAGGATAGATACCTGCTTTAGATGAAATGAAGTAGCATGTGCCAGAGAACACTGTAGTTTAGATACCAGGGCTTTCTGCAGCTGAAACTAGGGTTTAAAAATGAGAGTAAGTGTTCTTGGGTGCTGATTGCCATCATAAAAGAGCGATATTATGTAAGATGGAGTTTTCAGGGATTCTCACGGAGTAGACGTTTACCAGATGTGTCAAGAGCTGCAGACAACCCTGTTGTGTTGTGCATCCAGGACTGATTTCAGGCTTCTGCATGACACTTACCTTGATGGTGTCAGCAAATAGAGTGATCTGTGATTTTTAAATCTGCAAAACTCCTGAAGCAAGACAGTGGCAGCTAGCATGGCTTGCTAACAATTTAGAAACGCATCTAGATCCCATAAGGTTTCATACTTTGCAGGACTGATGGAATTGCTGCATGTTTTAGCATTATTTTAAAAAGAAGTAAAACTACTTAAATATGAAAATAACTTGCTGAAGTGATGTTATCAGTAAGGAATCTTCTAATTAGGTTGATAAATTGTGGTGTCTGAACATTAACCCAGTGTGATTGCCCTCAGTGGGAGACTGATCTTCATGGTTCTAACTCTTGGAAAAAAAAAAATCCATATTAATCATTTAAAATGGTCTTTGATGTTGTTTTCATTTGCATCTACTTTGAATTTATAAAAACAGTTAGCAAGTATCATCAAATGACTTGTATCTGAACTTCTCCAAAGAATCTCTAAGAAATTTGGCTTGCAAGTCTGATATAATGCCAGTAACAAGTAGACATTTGAAATTACTGTATTATAAAAGACAGATCACTGCTTTAATAGTCACATGTTTTGCTGCTGTTTTTTTCTGAAATATCTAAAAGTTTTATCTTAGTTCTCATCTTCTAGAATAATTATGCTAATTTAATTTTCCCTCCTGCACAGCAGTATGATTTTCTTTAGACTGTCAGAGTGAGTAAATAATTGTTAGTGAGTGAAAACTAGTACAGATTTGGAATGGTGACTTGCAGCACACTCCTGTTATTAGCTTTAGTCAACGATGTGCTACAAATTTTGATATTAATATATATGTTGTTTGTTTGTTTGTTTTTCCAG
Seq C2 exon
AGTGGGTTCACACCCCTTCACATAGCTGCTCACTATGGAAATATCAATGTAGCTACATTGCTGTTAAATCGAGGAGCTGCTGTGGACTTCACTGCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003135:ENSGALT00000004956:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PD(44.3=50.0),PF127962=Ank_2=PU(29.0=43.5)
A:
NA
C2:
PF127962=Ank_2=PU(26.1=72.7)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGTTTCACACCTTTGGCA
R:
GTGAAGTCCACAGCAGCTCC
Band lengths:
278-2041
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]