GgaINT0051461 @ galGal3
Intron Retention
Gene
ENSGALG00000006050 | F1NB14_CHICK
Description
NA
Coordinates
chr5:11498130-11499530:-
Coord C1 exon
chr5:11499201-11499530
Coord A exon
chr5:11498306-11499200
Coord C2 exon
chr5:11498130-11498305
Length
895 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
AAACTTTTTTTCTAATCCAGGAA
3' ss Score
8.12
Exon sequences
Seq C1 exon
GACATGTTCAAAAAGAGATCGATTTAGTCATCGGCCCAAACAAAATGCCTGCTTTGGAAGAGAAATGTAAAATGCCATATACTGAGGCTGTTCTCCATGAAGTTCTAAGATTCTGTAATATAGTTCCACTAGGTATTTTTCACGCAACCTCCAAAGATACTGTTGTACGTGGTTACTCTATTCCTGAAGGCACTACAGTTATTACAAACCTCTACTCTGTACATTTTGATGAAAAATACTGGAACAACCCAGAAGTGTTTTTTCCTGAGAGATTTTTGGACAGCAATGGACAGTTTGTCAAGAAAGATGCATTTATTCCTTTTTCATTAG
Seq A exon
GTAAAAACGATTCCTTCCACTGTTCCTTCTCATAAATCTAGGAACATAGCACATAAAAGTGATGGCAATAAATCAGAAATGAACAGCATGATTTAAATCCATGGTTCTGATGAAACAGCTATTTTAAAGATATATTCTTTATATATATATATATACATATTCTTGGCATAGCACATTTTAAGATAATGTCCTGTGTAAAAATAAACCCATTATTATAGAAACCAACAAAAAAAAATGCACATATATAGTATCTCCTTATCTGCAGAATCTCTACATATCAGAATCTCTGCATATCAGATCATCATGGCACCTAAGTGCTGTTTGTTTCAGAATTAACGTGCATATTCATTTGCTGCTGAAGTTGTCACAAACAGGTGATATACACAGCCAGTTTGCAAATTTCAGCACTTTAATCAGCACCAGAAATTGCAGGTATTTTTCTAAGGGAGGTCAGCATATGGCACTACATTATGTCCCAAGAAAATATTCTGGAAGTCCTAACTTATAGGCATTTTTTTATGCCTATAATTAAGGGTAATTTACCTCACGTATTAATAGCAACCTAAAAGTTAGATGTTCAGTTCAACTAACTGCCTCCTTCTGCAGTCCATGGAAAGACACACCCTGAGATACTCTTTCTCCAAAAAATAAAAGGAGCCAAGACAGTTCTCTTGGACTAAATGCACAACTTCTAAATGGCCTAATTTAGATGTGATTAGTTCTGTCTGTATTGCTTGTTTTGTTTCTCTGTACTTATTTGATTTTTATAACTTATAGAATTTGTAATCCATCTGCCTTACAAAACCACAATTTCTTATTCACAAGAGTGAAAATGTAATGTAAATAATTTTACAATAATTTTACAATCTTTTCAAAAACTTTTTTTCTAATCCAG
Seq C2 exon
GAAGACGACACTGTCTTGGAGAACAGCTAGCTCGAATGGAACTGTTTTTGTTTTTCACTTCGTTACTACAACGATTTCACCTGCGTTTTCCTCATGGTGGGATTCCAGATCTCAAACCAAGATTAGGCATGACATTACAACCACAGCCATACCTCATTTGTGCAGAAAGACGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006050:ENSGALT00000009745:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(24.1=100)
A:
NA
C2:
PF0006717=p450=PD(11.8=91.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAAACAAAATGCCTGCTT
R:
ACAGTTCCATTCGAGCTAGCTG
Band lengths:
342-1237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]