GgaINT0049819 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36816542-36818259:-
Coord C1 exon
chr7:36818167-36818259
Coord A exon
chr7:36816635-36818166
Coord C2 exon
chr7:36816542-36816634
Length
1532 bp
Sequences
Splice sites
5' ss Seq
TCGGTAGTG
5' ss Score
1.01
3' ss Seq
TGGGTGCTTGTATTCTGCAGGTC
3' ss Score
9.37
Exon sequences
Seq C1 exon
ATTAAATACAAGGAGAGCATTGGAAAAGGAACTCCAATTCCTGATCTCCCAGAAGTGAAACGTGTCAAGGAGACGCAGAAGCACATCAGCTCG
Seq A exon
GTAGTGGCCAATATTTTCTACTTACCTCTATATAACCTCTCAGAGCTCAGCCTTCAGCCTCTGGTAGTATTTATGGGTATTTTTTGTTGTTGAAAGGAGAACAGATCCCTTAAATCCATATCTTCTGCAGCAGAAAGTTGGATTTTGCAGCAATCATTACAGTTCAGTCGCTTCCCTGCATTATTTCTGTGACCACAGAAATAAAATAAATATACAGAGGTCTTATTGTTCTGAAAAAATGGAGCAGCTAGAGAGAAAAAAGTAAATTAGAGCCTCTTTTTGTAGTTAGAAAACCTAGCAACAGTTACACATGGAAAAAAAAGTATCTGCTCTTCCCACATCTACTTAATTGTAGATTCTAATAATGAAACCCAGTTCTCCTGACTTTGAGCCATCATTTCCTACAGCCTTACTTTGATCTCTAAGTACAGTATTGAGGGAAAGTATGGTCTTGTGATTGTTGGTACCTTGGACGTTTGCTATACAGTGTTGAGGAGGTGCCACAGGATGAATGTCTTATGATTTACTACTCCTAATGTTAAGTAGTGTTTCTCTCTTATGCTTTTTATGATAGTATTGATTTTTACAGCTCAGTGCATAGCAGTTGGTTTTTCAAACTGTGCTTCATTTTTCTAACCTTTAAGGTATATCATTTGTTCTCCCTTTCTGTGTATCCTTTATTTTTGTATTTTGTTTCCTTGTTTCAATGACATCAAGTAGTGAAATGCAGTTTGCAATTATTTTATGAATTTTCAAGTACTGCTAAGTGCATTTGTAATGTATTCCTGCATAACTAGGTTTTAGACCAAGCATCTTCTATATGTCTTCTGTCATAGAAAATGCAATTTTCTAGTCAAACACTTGTAGGTTAAATAAATTTTACACAGAGGGTGGTGACACACTGAACAGGTTGCCCAAGGAGGCTGTGGATGCCCCATCCCTGCAGGCATTCAAGGCCAGGCTGGATGTGGCTCTGGGCAGCCTGGGCTGCTGGTTGGCGACCCTGCACATAGCAGCGGGTTGGAACTGGATGAGCACTGTAGGCCTTTTCAACCCAGGCCATTCCTTGATTCTGTGAAATAGGGAAACACGAGAACTAAAATTCTCACTTGAAACAAAAGAAAATGTTGATTTTCTGGATGTAGAGATTGAAATGAAGTGGATTACACAACTAGGTGCAGCTGTTTGCCAACAAACAAAGATTAGATATGTTCACTGGCTGAGAAGTAGTACTGTTACTATTCCTAAACTAAGATGAAAAGCAAAAACTACCTATATTTTATGCCAGATTAGCAGAGTAATCAAATGTGTGTCCTATGATAGTGTAGTAATCCCCTGACTTCAGTGTGTTGAAGCTCCTGAATGTGGACATGAGTTACTTTGCTTAAATCCACACTCAGTGAAAGAAATGTTGTGCATGTTTATGTTCCAGATTGTATTTATCTGTTAACCAGGTAAAGTGCCTGTCCAGGTGTTCTGTCAGTACTGGGGAAGGGACACGTCTCATCTTTCTGGGTGCTTGTATTCTGCAG
Seq C2 exon
GTCTTGTACAAAGAGGACCTGGGGACAGGTATCCCAACACCTGTTACTCCAGAAATAGAGAGAGTCAAACGCAATCAAGAACACATTAGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:131
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.634 A=NA C2=0.839
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(33.3=29.0),PF0088013=Nebulin=PU(64.0=51.6)
A:
NA
C2:
PF0088013=Nebulin=PD(28.0=22.6),PF0088013=Nebulin=PU(64.0=51.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATACAAGGAGAGCATTGGAAAAGGA
R:
CGAGCTAATGTGTTCTTGATTGCG
Band lengths:
182-1714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]