GgaINT0126130 @ galGal3
Intron Retention
Gene
ENSGALG00000001910 | SNAPC4
Description
NA
Coordinates
chr17:8587965-8588897:+
Coord C1 exon
chr17:8587965-8588059
Coord A exon
chr17:8588060-8588802
Coord C2 exon
chr17:8588803-8588897
Length
743 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTAATGTTTTTCATTTGAAGGTA
3' ss Score
9.97
Exon sequences
Seq C1 exon
ATGCTGTTGGCTGCAGTTGAGAAGTATGGAGAGCGTGACTGGTATAAAATTCGGACAGAAGTGCCAGGGAGAAGTGATGCTCAGTGCAGTGACAG
Seq A exon
GTAGGTACAGTGCCTGTAACAGCTGTGCCTTCATGCCTGTTGTCCAGAGCCAAGCTGCAACTCATTTTACAAACGTTTGCTTTGCTTACAACAGGGTCATCTTAAAGACTGTCATGAATGTGGTTATGGTCTAAATACAATTCCCACGGGTCTCTAAAGGCAGTCTCTAAGCACAGCCTTTGTTTCCACCTGAGTTTGCCTCTGTAGTTAGAGAAGGTAGAGCTGACATTTGAGTTTAGCAGGGAGAGTGATGCTCTGTTGCCTGTGGCACATCATTCCTTTGGTATAGCTGCTGGTGGCAGAGCAGTAGTTGGAGGGGCTGTTGTCCTAAGCAGGGCAAAGGGATCCTGAAGTGTGAGTGCATGCAGGGAGGAAAGGTGGTCATTCATGTATGGGCTGCACAAACAGTCTGGTCAGTCACTTCCTGCAGCTGACACCGGTGTTGTGAGAGGTGCTGAGGTATCTTCAGCATTGAACCCAGCTTCAGGAGACCACATGCAGCATGTTCTCATTTCAGTGATCCATTTTACAACCGCTCATTACAGTTTTTAACCATGTAGCTTGATACTCCTGTGATCAAAGAGATTGTAAGTGTGCTGTGTTACAGGAACAGTAATGGGTGCCTTAGAAAAGGGGAAGATCTGATTAAGACTGCTGGTTGTGTTCAGCCTCAGATTATGCAGCTGATCAGTACCATATAAATGAAGTGAAACATTCCTTACTTTAATGTTTTTCATTTGAAG
Seq C2 exon
GTACTTAAAAGCATTGCACCGTGATGTAAAGAAAGGCAAATGGAGTTTAAAGGAAGAAGAACAACTAATTGATCTGGTGCAGAAGCACGGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001910:ENSGALT00000002951:13
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:
PF116263=Rap1_C=FE(31.4=100),PF139211=Myb_DNA-bind_6=PD(44.3=81.8)
A:
NA
C2:
PF116263=Rap1_C=FE(31.4=100),PF139211=Myb_DNA-bind_6=PD(36.1=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]