GgaINT0059792 @ galGal3
Intron Retention
Gene
ENSGALG00000008332 | F1NXV6_CHICK
Description
NA
Coordinates
chr5:25593055-25593812:-
Coord C1 exon
chr5:25593516-25593812
Coord A exon
chr5:25593166-25593515
Coord C2 exon
chr5:25593055-25593165
Length
350 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGA
5' ss Score
9.63
3' ss Seq
CATCTTTTTGTCTCTCTCAGACA
3' ss Score
10.48
Exon sequences
Seq C1 exon
GTCAAGAAAGGACAACAGTTGAGTTCACTCCACGGGTCAAACCATCAACCACAGGGCAGCCTTGTGAATCAGAGAAAGGAATGCTTTATACAGGGACGCTTTCAGTCACTGTATCTGGGGCTAGGTGCCTGCCATGGGCCTCAGAGAAGGCCAAAGCATTGCTCCAAGACAAAACCATTAACCCAGAAGTGAAGCTGCTGGAGAATTACTGTCGGAACCCTGATGCAGATGATGAGGGTGTCTGGTGTGTAATAGATGAACCACCATACTTTGAATACTGTGACCTGCATTACTGCG
Seq A exon
GTAAGAAGCCTTCATTGGTTTGAGTAGGCACACCTGTCATGGAATGGAAAAACAAACAAAACAACAAAACACGACTAGATTGGTATGAGTCACCCATGTGAAAGTCCTAGTTGTCCAAATAGCACATGTACTAACCTACCATACCTGTATTGAGAGCCACTACCTCTCCGGTGTACTCTTCTCTCTAAAGCCTCACACTGATGGATGATGGACATGAAAAGTAGGAACAGTTTCAAAACATCATTCCTTCATTGTTCCTACTGCGTGTGGAAACGAATGTCTACGCTGACTTAAATGTAGAAACCGCAGCAGTAGGCTTTTTACCACATTCATCTTTTTGTCTCTCTCAG
Seq C2 exon
ACAGCTCGCTCGAGGATGAGAATGAACAGGTGGAGGAAATAGCGGGACGTACCATCTTTCAAGAGTTCAAAACCTTCTTTGATGAAAAAACTTTTGGTGAAGGTGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008332:ENSGALT00000013559:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=WD(100=78.0)
A:
NA
C2:
PF093965=Thrombin_light=PU(40.8=52.6)
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:
GGACAACAGTTGAGTTCACTCCA
R:
TGGTACGTCCCGCTATTTCCT
Band lengths:
342-692
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]