GgaINT0062196 @ galGal3
Intron Retention
Gene
ENSGALG00000015721 | SVEP1
Description
NA
Coordinates
chrZ:65132214-65133746:-
Coord C1 exon
chrZ:65133576-65133746
Coord A exon
chrZ:65132388-65133575
Coord C2 exon
chrZ:65132214-65132387
Length
1188 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TTTTTTCACACACACTGCAGGAA
3' ss Score
7.34
Exon sequences
Seq C1 exon
ATTGTCCATCTTTGCAAGGATCTGTACCACATCTGCGTGCCTCTTCATCTGATTTAAAGCCAGGGTCAAAAGTCAGCCTTTCCTGTGACCCAGGCTTCCAGATAGTGGGAAACTCTGTCCAGCACTGCCTTAACATGGGACAGTGGACGCGACCCTTTCCACGCTGTGAAA
Seq A exon
GTGAGTTGTCTCAGTGGGCTGGCAGGATAAGGAAACATAGACTTATCTTTGGGCCCTAATACTATTCATGGTCTCTTTATCCCTGTAACTATAATGTGGTTGAATCCATCCATGTTACAGCGTATACAAACATGCTTAAAGCTAAACTCAAGTTATACTGGGCAGGAAGTACACTGTGATCTGATTCTGACACTTTTTTAGTCAGGTTCTAATGACTGTGGCAGACATGAGTCCATTTGGATCAGCAAAATGATATTCTGAGATTTCCTTCTCCATAGCACCAGGAATGTGGGAGATGCACAGGAAATACTAGAGAGTCTGTGAGTTTCAAGTGTCACTGAGAATGTTTAGTTTGAAACTAAATCCTTTGTGTTAGTGTATTTTAGAGTAATTTATTTAAAGGCAACAAATACTTCTGCCAGGACTTGGAAGACACTTCTAGAAGTCACTTCTGGAATTTCTTCTAGGAAACTAGGCTGCATACATACTCTTCTCCTTTTCTTTTATCTGCTCTTCTGTGACTGCACATGTGACTGTAGTTGCATACGGTGGAGATGACCGTATTTCTCTTTTGGATAGAACAGTATAGCTCCAGAAGTAAGTTAATGCGTGATCTCATAACTAATCAGAGATTTGGTAATAAATCAGCTGGGATCTGGAGAGATATTTTTACTACACTCAAAGAGATGCTAAGGGTTATACGTCGGGAGTTCCAGTCTCACTGTGATCTCAGTTTAGCACTGTGACCTCACAGTAATCTGTTTGCTGATTTAGCACTGCTTAATTGCAGTAATATTGAGCTTGTACTTAAGTAAAGGGATATAACAGGAACCTCCATACAGGCTTAGTTTTCCTTTTCCCTAAAGCCCATTAAAGATCATTGATTATCAGGGGAACTGTGACAAAAAGACATCTACTGAGATCTTAGTCACAGATTTCTCCTCCAAAGCTAGCAGAATGTCAGGATCTGGAAAGTCTCTGATTGACAAGTGCCCACAAAGTAAGACCCTTCTTTGCCCTTCCTTGCCTGTAATCAATCAGCCACTTCAGAAAAATTCTGGGCCCTCCTGTGAATGGGTTTCCACAGTTGTTCCAGGGAAGAAATCTCTGGCAGTAGCTCGAATGTGAAACATGTCAATTTGTGTCTGCTGTGCTAATATCTGTCCCTTTTTTTCACACACACTGCAG
Seq C2 exon
GAATCAGCTGTGGAGTACCTCCACCTTTAGAGAATGGCGGCTATGCTGCTGAGGACTTTTTTGCTGGCAGCACCATTACCTATCAGTGCAACAGTGGCTACTATTTGCTGGGTGACTTTGAGATGTTCTGCAGGGACAATGGGAGCTGGAGCAGCATTTCACCATCATGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015721:ENSGALT00000025350:34
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:
PF0008415=Sushi=PD(94.8=94.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGTCCATCTTTGCAAGGATCTGT
R:
CCAGGCATGATGGTGAAATGC
Band lengths:
343-1531
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]