GgaINT0047785 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19096943-19098170:-
Coord C1 exon
chr7:19097997-19098170
Coord A exon
chr7:19097042-19097996
Coord C2 exon
chr7:19096943-19097041
Length
955 bp
Sequences
Splice sites
5' ss Seq
GCGGTATGT
5' ss Score
9.45
3' ss Seq
AAAAACATTTTATTTTAAAGGAA
3' ss Score
6.87
Exon sequences
Seq C1 exon
GTGACCAACTTGGGCAGGCCACTGAAAACATTTGGTACGGCTTCCCTGGACATCCAGTGGCCAAAAGAAATTAGTAATGGCAAATGGCTGCTGTATTTGATGAAAATAGAATCCAAGGGCTTGGAAAAAGTTTCCTGTCAACCACAGAATGAAATCAATGTTTTGCATGTTGCG
Seq A exon
GTATGTTATCCTTCCTATCTTCTTCTGTTCACTAATGGGTTCACCATTAAAACAGCACAGCATGCGATAACAGGGTGTAAGAGCTTACCTCCAGAAGGAATTTTTTGTCTTAGGAAGGTCATAAGCATGATACATATTAAACAATATGTTAGGGGCTAAGCTTGTTAAGAGACTTGGTTATAAACAATGAGGTGAGCTAAAGGACAGATGCTATGTCTCAGTGACTGTATCTGCACTGGCACCATGGACCTCTCACGGGACAAAACTGCTCTTAGCTTTGATGCATTTCATCAACGTTATTGAAATCTGTTTATTTTCCTATGTGGAAAAAATCAAAAATAGTCACTGGCCCAGTATGAGGGAATTCCCTGTACTTTTTCAAAAGAGAAACAGCTTGCACTTACTTGTAATGTATTTCTTGCAAATAAATAGATTAATCAAACAGGAGTTTCAGTCCTTCATTATGCCAACCTAGCAAGCTTTTCTAACCCCTGAGTCTTCACTGTCACTGTTTTTCATATAATCTCAAGGTCATTTGGGAGAAGTTGTAATTCTAGCTATTAAAACTGCGTGTACTCAAACCTATTCTCATCCGTTGATCGTTACTAAACTTTCTGTGAGTAATCAGTATATATTTCAAAAAAACCAAATTAGTGTGTACTGACCATATCACCTGTAAATCTGTTAACATAGTAATATTAATGCCATAGACACAGAACAAAAACAGCATGAAAAGCTTTTTACATCTAAAAAGTCATTGACGTCAAAAGAAAATAGACAGGTGGCTTTTTAGTGATTAATCTCAAATTTTCATGATTCTGTTATTAGCAATTAATGTAGAAAAAAAGAGGATATACAATAATATTATACTGATCTGGGAACAGAAATTGTTTTTGTGCTTATATGAAGAGATAGAATTAAGACAGAGTTGTGACAAAAACATTTTATTTTAAAG
Seq C2 exon
GAATCCCATAATTCAAGAAGAAAGCGTGAGATTGCGGAGAAGCAGCTTACAGACAGCAAGACATTTTCTTTGTTTTCAGAAAGAAAATATAAGACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.121
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(11.9=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(6.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACTTGGGCAGGCCAC
R:
TGAAAACAAAGAAAATGTCTTGCTGT
Band lengths:
248-1203
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]