GgaINT0102142 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:4520474-4522116:+
Coord C1 exon
chr2:4520474-4520722
Coord A exon
chr2:4520723-4521674
Coord C2 exon
chr2:4521675-4522116
Length
952 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACA
5' ss Score
3.85
3' ss Seq
GCTCTCTCTTCCTGCTGCAGTAC
3' ss Score
7.45
Exon sequences
Seq C1 exon
GACCTGAACAACATCAGCCTGAGCAAAAGAACCCTCAGCATGACCAATCTGACTGGTTCAAGCACATCAAGTGCTTCCCCGGAGTACAAATCGCACTTCAACCACAATGACAGCAGCAGCTACGCCAACAGCAGCGCCAACGGCAGCCCTTTCACAGTGCCCAGTGAAAAGGGAGTTTACTCCCGAGAGGTGCTGATGAACAAAACTGTGGATGAACTTCCAGAAGGAGTGGATCCCACTAAAAAAGAG
Seq A exon
GTGACAGCACTGCTGGTTTTATGCCCTCGTAGCTTAACCAGGAACTTAGTTGTAGGCTACATGTGGCAGCACGTCAGGTTATTTAGTCCTACCTCAGGCTCAGAAAGATGCCAGCTGGACACCAAGGTCTCATGAAGAAATGAGAGGAAACTGCGGTAGTTTTACTGTAGTTAAAGTATTCGTTTTTTTTTTCCTTTTCCTAGTGGAATAAAAGTTCATTTTGCCAACATCTGTAGCTGAGTGCAAGCAAGCTGATGGGAGGGACACAGGGCTGCTGCCTGTTCAAACCCATGTTTGACCTGTTTCTTGCCCCATCTGATCTCCTGGCCAACACCTGGAGCCAGAGGGCTGATGACCTACTGGGCCAGCAGCTCTGCACTGCAGCAGTGCCCGTGGGGAAAGGATTGTGTGTCAGCTGGGCTGTACAGCTCCTTTCTTTTACCCAAAATGCCAGAGAAGATTTAACTTCCATGTCCCACAGGGTCTTTCTTTGTCTACTATCTACAAAATGTTTTGTCTTTCCAGAAATGGGAGTGAACATTTCAAGTGGAATATCTGGGGGGAACTGAGCCAATGGGAGATGCTTTCACTATGAATTACTGGCTTGAGAAACCACTCAAAGCAAGCCAACAGAATTTCTCGGAAGCAGTGTTAATTGACTTGGCTTGAGTATCATTAGCAAGGACCAAATTCTGACCAGAGCATGCTAACCCCTCAAAATCAGGGCATCTTCTTGGGCTATTATTCCTCTGGCACTCTGGGAAGTAGGATAAGGAACAGCTGCTGGGACATTGCATTTCCCACCATGAGGACAGAGAGCAGGGCAGAAGCTGTTTGCCTGCGGTCAGGGCTCAGCTCTGGCATGGCGAGGAAGGGATGTGGCTGAGTGGAGGTGTCCCAGCCTTTGTACAAGCCAAAGCTGACCTTCTCTTGCTCTCTCTTCCTGCTGCAG
Seq C2 exon
TACTATCTCTCTGATGCTGATTTCCACGAGATCTTTGGGAAGTCCAAACACGAGTTCTACCAGATGCCCAAATGGAAGCAGCAGAATGAGAAGAAGCAGTGTGGACTCTTCTGAGACCGCAGGGGCCACCCGGCATCCAACGACTTTGGGAACAACCCTTCTCTCTTAGAAGATGCAGGGAAGAAGCACAGACATTGGCTCAACGAACCCAACCCAACATCTCAATCAGGCCAAGCTCCAGTGCAGTTATTCCAGCAGCCTCTGTTCAGGGAATGGCAAAATGTTTTGCAGGAATGGCTTTGCATTAAGTTTTTGCTTCTCTCAGACACTTTATTGCTGATAGCCTTGAAGACAAGTGGTCAAAACTGCATTGTAGCCTCTTCTTTCCTCATCCTTTTGCAGTTTGCCAAATCTGCAAGATTGCGATCCTCCTCCATTAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005763:ENSGALT00000009258:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.410 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF062807=DUF1034=FE(82.8=100)
A:
NA
C2:
PF062807=DUF1034=PD(1.0=2.6),PF0220914=VHP=WD(100=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTTCACAGTGCCCAGTGAA
R:
CTGGAGCTTGGCCTGATTGAG
Band lengths:
343-1295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]