GgaINT0126131 @ galGal3
Intron Retention
Gene
ENSGALG00000001910 | SNAPC4
Description
NA
Coordinates
chr17:8588803-8590206:+
Coord C1 exon
chr17:8588803-8588897
Coord A exon
chr17:8588898-8590120
Coord C2 exon
chr17:8590121-8590206
Length
1223 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CTACTCCTCTTCCTTTTTAGGTC
3' ss Score
13.4
Exon sequences
Seq C1 exon
GTACTTAAAAGCATTGCACCGTGATGTAAAGAAAGGCAAATGGAGTTTAAAGGAAGAAGAACAACTAATTGATCTGGTGCAGAAGCACGGCCTGG
Seq A exon
GTGAGTTTTCCTGTGGCTTAATTTTTAGCTCAGGAAAGTAGTGTTCATTATTTGAGTTTCTTCCTCTTTTCTTTTAAGCAGTGGCAGGCTCTGTTTCGTGCTGATGGTTTCGAGCTTCCTTACATGGAGCAGCCTTTTCCTTGGAAGTTCACTTATTAAGGAGCTGCGTAGCAAAGGGCCGCATAGCTGTGTCTGTCACAGCTCCACAGAGCTCACACAGCCTCTGAAAGAGTTCTCTTACTTTCTCCAATACTATTTTTCAGCATTAGGTTTTAACCTTTCAGCCTCCATCTGAGCGTGCTATTAGTGCTGTGAGGAAGGGGGATGTAATGCTGCCAGGGTTTTGGTCACTGGTACGTTCATTTTAGCTTCTGATGTTGGCTGAGTGTATGGCAGAGCAAAGTGCAAAGAAATCTTAGATAAATCAAAGGTGAGGATTAGGATTTTATCATCTATTCATATATATTTCTCTGCATAAGAGTCAGTTACTGTAAGTATGTATGGTGTTCTGCCCTGAAAAGGAAATCAATCTCTTTTCCCACCCCCTACTCTTTTACACTCTGAATTTCACAGCACTCCTCTCTGTGTATGATGAGCTTATCAGGATGGGTGAACAGTTCTCCTGCTGGATCTTCTTAGGTGCAATCTAATGCAAGACAGACACTTTCCCAATCTCACTAACAACTCGAAAATAGCAGAAGGCTCAGTAGGGTATGAACTACTCCAAACCTTTTTAGAGATGACGCTCTCTTATGTAAATGTCACACTTGCACTGCCTCCATCAGACTGTATTAGCTTTGCTTACAGCTTTTGGTGCTACTGAAGCACAGGAATCTTATTCATGAAAGCATTTGAATATAAGTATATACAAGTTCTCCTATGTTTCAGTAAAATGTAAATCAGATGTTTCCTGAAGTGAGGTGCCTTAGATTCCATGAAAACATACAGCGTTGCAACTTGGTGCTGGTCTGAGGAAGTCAGTCAGACTATTGTTTAAGGAGGTGCAGCATTTCTCTGACTGACATCAGGGAGGCTTCGTGTGATTTAAATGTAGTTTAAAAAACAAAATAAAATCAGCCCTCCGCTCCGACAAAGACATAAACCCGTCCAACCAACCCTCATTTTAATCTGAGTGCTGACATCTAACTGGCTTTGTGGATGAGAAGTACTCTCCCTTCAGTTGGTTGCATCAATAGGTATGCTCTACTCCTCTTCCTTTTTAG
Seq C2 exon
GTCACTGGAGTAAAATAGCTTCTGAGTTGCCACATCGGACTCGCTCCCAGTGCCTGAGCAAGTGGAAAATCATGATTGGGTCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001910:ENSGALT00000002951:14
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=0.051
Domain overlap (PFAM):
C1:
PF116263=Rap1_C=FE(31.4=100),PF139211=Myb_DNA-bind_6=PD(36.1=66.7)
A:
NA
C2:
PF116263=Rap1_C=PD(3.9=13.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]