GgaINT0047676 @ galGal3
Intron Retention
Gene
ENSGALG00000010943 | E1C4S3_CHICK
Description
NA
Coordinates
chr7:21102907-21105030:+
Coord C1 exon
chr7:21102907-21103080
Coord A exon
chr7:21103081-21104907
Coord C2 exon
chr7:21104908-21105030
Length
1827 bp
Sequences
Splice sites
5' ss Seq
GATGTATGT
5' ss Score
6.31
3' ss Seq
ACTTTCCTGTTTTCATATAGGTC
3' ss Score
11.21
Exon sequences
Seq C1 exon
GCTTTTGAAGATATATATATTGAACAGCGCAAAACTATCAAGACCATGCTGGAATATGCTGACAAAGTCTTCACTTACATCTTCATTCTGGAAATGCTGCTGAAGTGGGTGGCCTATGGCTATCAAACATACTTTACTAATGCCTGGTGCTGGCTGGACTTCCTGATTGTTGAT
Seq A exon
GTATGTAGTGCATTTCCTAGGTGCTATTTTTACAATTTTTTTCATTACTTTCTCTACAGCCATAATATCTATGTGTATACCAACTAGTTTACTTTCCAGTTTAAAAAGTAAGGTAAATGGAAAAAAAAATCCATAGTTTTGGTCTTTCATTTTACACTTACACTACTACTTTCCTATACCACAGAATTAATAAAAATAAGGTCCAGCTAACAAAAGAATATAACATACTAACTCTGCAAGTATTTGCAGTTCATCCCAGCACTGCACATGCCTACCTTCAGGCCCCAGTTTCCTTCCTGTGGTGTAAATCACACCCAGCATTTAGATGGATGTCTGTTCTATCAGACCGTCATAACTGAAAAACAATTATCCAAACTATCCAACTACAAACTCCAGCATATGACTGAATTAAGTTTTTACAAGGAATGCAAGATGCATGTGTAGCATTGGTGGTGTGGCTTACTAAGTATAAAAGTCCACAAAATATTACTGAACTTACAATCTTCAAAGCTGTGTTTGAAAACAAACTCAATTATCTTTCCTTATGGGGTTATCTAATAGTTTTAAATCTACTGTGCTGTGTCATAAATCGTGGCAGACAATTTCTGTATGGATTGATGCAATTTAAAATTAGGATGACAATTTAAACCTCCAGTGTGCAAAAAAGCATACTGTACCAGTGGCTGGTAAAACTTGCAGGAAAAAGAAATATTAAGAAAGTTGAAATTTAAAATCAAGATGTATTTTGTCCTGCTTTCAGTGAATTAACAATGATATAGATATTTTCTTTAATTTGGTATTAGATTATGAGAGCATGAAAAATCAAGTTTTCAATAGCATAATGAAGGTATTGGAGAAAAAAATCAGATTCCAGAAGGTCCTAGTTTTGCAGGTTAGTAAAGATGAGGATTGGCAAGTAGAGAAAAGTTCAAGATTTCACATCTAATACTTGCTTCTAAATATGATTAATGAAGAGCACTGTCACAGGCTTTTCTTTTCGTATTGCTTTGTGGGTGGGTGTGTTTTGTTTGTTTGTTTGTTTGTTTTTAAATAATTAAATCATATATTAGACCATTAAACTATTTCTTTCCAATAACTAGTTTAGGAATTGGAACAGGATAATGAAAGACCATTCAGGGGAAATGGGATGAAAACTGAAAGTATTATTTTGTCATGAACCGTTGTGAATGTAGAGGATATGGTATATCTCATTGAGGAAGTGAAGGGATGTAGAATACATACAGGCAGGTGAAGATGTGACTTTAGTAGTTCTGTTGCCTATGGAACACATTCTGTAATGTCTTTTAAGAAACAGTGTATTCCAGGTTAATGTCAGCCTATAACGTACATAAATTCAATCGTCAGGCAAAAACTTAGTTAGTGTAACTGAATATAGAAAAATCAATCTACCAGTTTCCAGAGAAAGTGTTACTCTGTGACCCATCTGTTAACTCGAAACAGGCTTCAATCATTTCCCTTCCAGCTGTGGGCAATCAAAGGAGTATTATCAACTATAATTACTAATCCCAGCAACATTGTAAAACAGAGGGGAAAAGAAAAAATTTGGCCCTCAAATCACTATTAAAATAGGAAATTTCTAATTATTGTTTCCAGATAATAACTGTTACCCTATGGTATTTTTGTTTAACTATTTACTTATGCTTCTCTTCTTTCTCATTAATTCTCTTTTTTTTATTTAAAAGACTTCGTATTCCTGAAGAAAGTGGTCCAAAATTAGATTCTTCTAAAGAAGTTTGTGTCTCACATCTATGGTATGTAAAGTAGTATGTACAATATAATAATTTTTACTTTCCTGTTTTCATATAG
Seq C2 exon
GTCTCTTTGGTTAGCTTAACAGCAAATGCATTGGGTTACTCTGAACTTGGTGCCATTAAGTCCCTTAGGACACTAAGAGCTTTGAGACCTCTAAGAGCCTTGTCACGATTTGAAGGCATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943:ENSGALT00000017814:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(17.0=67.2)
A:
NA
C2:
PF0052026=Ion_trans=FE(17.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAACAGCGCAAAACTATCAAGAC
R:
CCTCATGCCTTCAAATCGTGAC
Band lengths:
278-2105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]