GgaINT0038981 @ galGal3
Intron Retention
Gene
ENSGALG00000011369 | F1P4G9_CHICK
Description
NA
Coordinates
chr8:30520050-30521624:+
Coord C1 exon
chr8:30520050-30520233
Coord A exon
chr8:30520234-30521022
Coord C2 exon
chr8:30521023-30521624
Length
789 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
AAATCTTTCTGTTTTTGTAGCTC
3' ss Score
7.48
Exon sequences
Seq C1 exon
GTGTGGTTTCAGAATTGCAGAGCACGTCATAAGAAACATGTTAGTCCTAATCATTCCTCTACTGCTCCAGTCACAGCAGCTCAGCCCTCCAGGCTGTCTCCACCCATGTTAGAAGAAATGGCATATTCAGCATATGTACCCCAAGATGGGACTATGTTAACTGCCCTGCATAGTTATATGGATG
Seq A exon
GTAGGTACAACTTTGCATATCTAAGTAATATCACTCTTGACTGTAGCAAGAACAGTTTACCAGGCTCCCATTAAAGAAGCTTACCAGATTTCTTGTTTTAGGCTTTATAGAATATCTTAATGCAGTATTTGCTCTCCGTGTCTTGTTAAGAAGTGCACCGCTTCTATCAGTAGCACTTCACTGTAGTAGCTTAGCTGAAGATCTGGGTATGAAGACTACTTTCTGTACTTCCTCCAAACCATGAGTATTAGTAGTAAGCATTCAAACACTTGTTTTTGTAGCATTCATGCTGTATTTTCTACAATATCTAATTTTAATGAAAACTGTTGACCAGACACTCCCTGACCCTACAAACTGTAGGTGTACTGCAAGCTTAAGCTTCTGTCACAGTAACACATAATGGGAGGAGCTTTGTTTTCAAAAAACATCATTGTGTGTTATTTGAGCCCAACTTGTTCACTTATCAGGTCAAACTCATGGTTTGGAGACACTGACAAATTTGGGAGGCCTGGACTCTCAGCTGCAGGTGTGGCCTAAGCCCCTTCTTCTCCAGAGTGGTGTGTGAGGTGGGCTGTGGTTGGAGGCAAATGAGCACCGGGCCTGAAGTATGGGGTTGGTGGAAGCACTTGTAATACCACTTAGTACCTCCTGGCATCAGGCTTGTTTAGAAAAATAGTGCCTGATTAGGTGGTTGGGACCAGTGAACATTTATTTACCCAGTGGGATTTTACTAGTTTATGTTTTTCTACTTCCAGTGAAGTTGACAAGTAAATCTTTCTGTTTTTGTAG
Seq C2 exon
CTCATTCACCTACAGCTCTTGGACTCCAGCCTTTGCTACCCCATTCAATGACACAACTGCCAATAAGTCATACCTAATTTCTTTCTGTCAGGGATATAAGCTATTAAGGATGTAAGCTTAAGTCACTTACTGTGTATGAAAGTTATCATTGGAAAGATATTAATGTTAACTTTTTATTTAACATCTAAAGCATTCTCAAGAACATTTTTGCTGCCCAGGTATATGTAAGTATACATTTAGCCTACAAGACACTTCTATGGATTCTGCATAATTACATATTACATTGTTTACAAGCCTTATTGAACACCTTTTTGTATTGTCTGGAAGTAGATCACTCTAGTTACGTATTTGTTAATTTATTTGTCATCAAAAGAGCACTTTGCCTAAAAGAAAGGACTGACAGTTGTGCAAAATGTTTACAATTCTTTGTGAGTTTGTAGTTTATCATTAGTTTGTATTGGTAAGTTATTGCTAAAAGTATTACTTGTATTTGAGTTGTATACAGCCTATATGTTAAAGCTTATTTCTGTGAATTTGCAAAAATAAATTTTGGTTGCAAATATTTTCAAAATGAACTAAATAAAGTTTTTGCTGTAGCATGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011369:ENSGALT00000018546:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.560
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PD(19.3=17.7)
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:
TCTACTGCTCCAGTCACAGCA
R:
ACCTGGGCAGCAAAAATGTTC
Band lengths:
347-1136
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]