GgaINT0095050 @ galGal3
Intron Retention
Gene
ENSGALG00000007145 | F1N8N7_CHICK
Description
NA
Coordinates
chr2:13981362-13982029:+
Coord C1 exon
chr2:13981362-13981532
Coord A exon
chr2:13981533-13981790
Coord C2 exon
chr2:13981791-13982029
Length
258 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TTTCTCTTTTTTTTTCTTAGGAT
3' ss Score
12.22
Exon sequences
Seq C1 exon
GGGAACCGCAAACATTTTCATTAAAATTTAAGAGAGCTGAAGATTACCCCATTGACCTTTATTATCTTATGGACCTCTCCTATTCTATGAAAGATGATTTAGAGAATGTGAAAAGCCTTGGCACAGCTCTGATGCGTGAAATGGAAAAAATAACCTCAGATTTTCGAATTG
Seq A exon
GTAAGAAAGATTTGTTATTGAAATGTTTCCTTCTTGATGGTTTTCACACCATTACGTATGGAGACCTTTTTTAAAGCCAGCAATACTGTGACAGAATAGAATCTATTGAGCAATGTGGAAATACGTGGCGGAGAAAGGAGAATGCAAACAAGTATGAGAAGCATTTCTAACGTCAGAACACCTATAATGAATTTGCATTCTGTAAATAATTGAGCTACATTCTTCAGCTCACAGAGTTTTTCTCTTTTTTTTTCTTAG
Seq C2 exon
GATTTGGCTCTTTTGTGGAGAAAACTGTGATGCCATATATAAGTACAACACCAGCCAAACTGAGAAATCCTTGTACAGGTGACCAGAACTGTACGAGTCCGTTTAGCTATAAAAATGTGCTCAGTCTTACTAGTGAAGGAAATAAGTTCAATGAGCTTGTAGGTAAACAGCACATTTCTGGGAATCTGGATTCTCCTGAAGGTGGATTTGATGCAATAATGCAAGTTGCTGTTTGTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007145:ENSGALT00000011573:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(18.3=100)
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:
GAAAAGCCTTGGCACAGCTCT
R:
CCCACAAACAGCAACTTGC
Band lengths:
301-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]