GgaINT0049053 @ galGal3
Intron Retention
Gene
ENSGALG00000020715 | O42419_CHICK
Description
NA
Coordinates
chr7:20984052-20985262:+
Coord C1 exon
chr7:20984052-20984143
Coord A exon
chr7:20984144-20985025
Coord C2 exon
chr7:20985026-20985262
Length
882 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AAATCTACCTCTGTTTGCAGGCT
3' ss Score
7.63
Exon sequences
Seq C1 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCATTGAGAACATTCAGAGTTCTCCGAGCTTTGAAAACAATATCAGTCATTCCAG
Seq A exon
GTGAGAGCTAGGTTAAACACTGAGGCTGATTACAGCTCATGTTTTTAACATAATTAGGCTCTAGTCTTAACTTAAACTAAATTAAACTAATTTCCTTTTTCTAATTCTTTAAAACGCTCAGCCTCAGAGTTTAACACATTCTTGCATGAGAAATTGAACTACATAGTGTGTGTTTGTTTCCTTTTTGTGGTGTCAAATTTTCTCTCCCACATTAAGGATCAAAATTAATTACCTTCTCATTCCTCTCTTACTAATGTGAATGCTACCTTTTATCATAGCTGTTGGGGATTGAAAATTTCCATGTATTGAAAATGTATTGAATCTCTGATAAAGGAGTAAGATAATAGATTAGCATGTGAATTGCATGGTGTAGTTATTATCTTAAGATGCCTATCTTCTCCATGCCATCTGCAGCTGAACAGAAACCATTAAAATTTCTGCTACCATGAGACTGTGTTTTGTTTTTCTTTGCTGCTATCGAACAAATATATTGTGAATTGGAAACGGACACTGGCACTGGAGCGAGAGGCATCAAGAAGAAAATAAGTCTGGAATGATTTTCTTCTTGTATAGTTAACGTGAATTGGGAGCATGAGTAAAAACACCTACTTGTTTATTTGAAGAGCAGGCGTTTTGGAATACTTACCATTCATTCCCATTCATAGTTTCCAATTGGTTTATCAGGAATTATGAGACTTATAGGTAGCTTTTTCCCTTGGGAAAAAAAATAAAAATTAAGACTATTTCTTTGCAGCTATGCATGGTTTTGCAAACAAACAGGTTTTTTTGCAAACAATCGAACAGTTTGTTGGAGTAATCCACATTGCATTTTAGATTAGGTAAATATTTAATATTATAATAAAAATCTACCTCTGTTTGCAG
Seq C2 exon
GCTTGAAGACTATTGTGGGAGCCTTAATTCAGTCTGTGAAGAAACTCTCAGATGTAATGATTTTGACTGTTTTTTGTCTGAGTGTGTTTGCACTGATTGGACTGCAGCTGTTCATGGGCAACTTGAAGAATAAATGCTTGTTATGGCCATCAAGAAATTCAACCTCTTTTGAAAAGTACTTAGCTCCATACTTTAATGATACAGTGTTTGACTGGGCAGCGTACATTGAGAATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020715:ENSGALT00000017930:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(12.1=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(30.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGTGACAGAGTTTGTGGACCTG
R:
TCATTCTCAATGTACGCTGCCC
Band lengths:
326-1208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]