GgaINT0126505 @ galGal3
Intron Retention
Gene
ENSGALG00000000993 | GAPVD1
Description
NA
Coordinates
chr17:10344445-10345560:+
Coord C1 exon
chr17:10344445-10344517
Coord A exon
chr17:10344518-10345362
Coord C2 exon
chr17:10345363-10345560
Length
845 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GATGGGTTTCTTTCTCCTAGGTA
3' ss Score
9.34
Exon sequences
Seq C1 exon
GGTCCTTCATGAACACATACAGAGGTTATCTAAAGTGGTGACTGCAAACCACAAAGCACTTCAGATTCCTGAG
Seq A exon
GTAAGAACTTCTCCTTTTCTTCACTCTGTATGTTGGAGTTTTTGGGTTTTGATTGTGTTTGTGATGAGGAGAGGATTGTTTTGAAATGTTACTTTTATGGCCATGCAGCTGAAATACCCTGCAGGAAAGACACACTGCACCAATACTTTAGGATCATCCACTGATATTTTAAAATTCTTTTTTTTCTTCTTTGGATTTTGCCACTTCTGTCCTGATGGTAAGATTGAAGCAGTAATACTGCACTGCAGTAAGATGCAAACTTTCAGATAGTTTCCTTTAGATTACAAGATTTCAACCCCTTATATTTCTGACATGACTTATATGCTATGACTGTGGTTTGTAGTTATCAAGTTTGCTTTCAGAACTAGCATCATTAATGGAATCTTGACACATCTATGAATTTGCCTGGTGTTTTCTCTTTTCTGAGGGCTAGGAAGGTAATTAAATTAGATTGGTAGACTTAAGAAATCTGTGAGTGGCTGAATGCTTGCAGTCTTCCTAGTTCAGAGTTTGAGCTGTGTGGCTGAAAATGGTAAGCATTCATGAAGTTGCTTATATATGGAAGACAGACATGCAGCTCTACGCTGTTTCGAAATAGGGTACTGTAGAAGTCAGGAGAAAGTACAGTCTAATTATGTTAATTGCACAGACGGTGTTATCTCCTTGTGATTTTTCATTATAACACAGCAGGAAGCCACCTTTGTTCCGTGTGCAATGGAACCATATTGACCTAGAGCTTCTCATTTATCCAGAGCCTCGCTCCTGCCTCTGGTGCCTTGGATCCTCTGTGGTGCACAGTAGTAGTGTAGATAAATGAGAACTGTCGATGGGTTTCTTTCTCCTAG
Seq C2 exon
GTATATCTCCGGGAGGCACCGTGGCCATCTGCACAGTCTGAAATCCGTACAATAAGCGCTTACAAAACCCCCCGAGACAAAGTGCAGTGTATCCTGCGAATGTGTTCAACCATTATGAACCTGCTTAGCCTGGCAAATGAAGATTCAGTACCTGGGGCAGATGATTTTGTTCCTGTTCTGGTCTTTGTTCTCATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000993:ENSGALT00000001466:23
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220413=VPS9=PU(56.3=87.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCTTCATGAACACATACAGAGG
R:
TTTATGAGAACAAAGACCAGAACAGG
Band lengths:
270-1115
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]