GgaINT1005399 @ galGal4
Intron Retention
Gene
ENSGALG00000018934 | ACVRL1
Description
activin A receptor type II-like 1 [Source:HGNC Symbol;Acc:HGNC:175]
Coordinates
JH375504.1:2157-3763:+
Coord C1 exon
JH375504.1:2157-2317
Coord A exon
JH375504.1:2318-3048
Coord C2 exon
JH375504.1:3049-3763
Length
731 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TCACATCCTACTGCCCCCAGGAG
3' ss Score
7.82
Exon sequences
Seq C1 exon
GCGGTTTCTCTGCTGCCAAGGGCACATCACCATCGTTAATTACCTCCTGAATTACTTCCCGGCGCTGGACGTGGAGCGGCGCGACGCCCGCGGGCTGACGGCGCTGATGAAGGCGGCGGTGCAGGGCCGGCACGACTGCGTGACCGCACTGCTGCTGGCGG
Seq A exon
GTGAGCGCCACGGGGACCAACTCAGAGGTGTGGGTGTCCCATCCCCGGGGGGCTCAGGGCTGTGGGTGGGGCCCTGGGCAGACTGATGTGGTTTAAGGACACCCAAAGCCAACCCGTTCTGTGGTTCCGTGGTCCTGAGGGCCATTCCAACCCAACCCATTCTATGATTCCATGGTTCTGTGTTCTTTAAGGACCTTTCCAACCCAACCGTCCCATGGTTTTTATGATCTTTAAGGACCTTTCCAACCCAACCATCCCATGGTTTTATGATCTTTAAGGACCTTTCCAACCCAACCGTCCCATGGTTCTGTCGTCTTTGAGGACCTTTCTCACCCAAACACAACCACTCCATGGTTCTGTGGTCTTCAAGGTCCCTTCCAACCATCCCGTGGTTCTGGGATCTTTAAGGACCTTTCCAACCCAACCATCCCATGGTTCTTTGATCTTGAAGGACCTTTGCAAGCCAGCTGACCCGTGGTTTGATGATCTTTAGGAATACTTCCAACCCAACCCATTCCAAATTTCCATGATCTTTAAGGATCTTTCCAACCCAACCATCCCATGGTTCTGGGATCTTTAAGGACCTTTCCAACCCAACCCATTCCATATTTCCATGATCTTTAAGGACCCTTCCAACCCAACCATCCCATGAGCTCTGTGGTGGTTTGAAGGATGGGTGGGATCCTCGTGCTGATGCTGCAGTGACACTTCTCACATCCTACTGCCCCCAG
Seq C2 exon
GAGCCGACCTGCATGCTGTGGACCCCATCAAAGGGAAGACAGCCAGGGATTGGGCCGCCTTCACCGGCCGCTTTGAGACCACCGTCCGCATCCGGACCCTCCTCCGGCGCCCGCGGGCCGAGCAGTTTGGTACCCACTACCTCCCCGAGTGGCCGGCGCTGGCCGGGCTGGTGGCCAAAGCCCTGAGCCCCAAATCCCGCAGCCAACGGCTGTTGGAGAAGATCCGTTCCCTCTTCACCTTCCGCATCCCCCGCGACCCGGAGGAGGACGGCGTGTTGGACCACATGGTGAGGATGACCACCTCCCTCGCCAGCCCCTTCGTGACCACCGCTTGCCGAACCGTCTGCCCCGATAGCCCACCCGAAGTGGGCAAACGGCGGCTCTCGGTGGCGGAGATCCTCCAGGAGCACGTGCCGGAACCGGGCACTGGGATGGCATCGTGCAATGGCCAACTGGAGGGGCACGGCCAACTGGAGGGGCACGGCCAACAAGTCGGCAATGGCCAAGTTGCGTTGGACCAAGCGGTGGTGCAGATGGCGCCGTGCCGTCACCGCCTCCTGGGTTTCCTCCCCCGGCTGCTCCGTGCCAACTGCATCTTCCCCGGGGAGCGCGTGCCCAGGATCAAGCTGAGCAAAGCCGGCTCACCGCCGGCGTGCAGGAGGGAGAGGAGACCTCGCGGCCGCGACAAGGCGCTGTTACAGCCACCCAAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000018934:ENSGALT00000035985:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.301
Domain overlap (PFAM):
C1:
PF136371=Ank_4=PU(37.5=94.7)
A:
NA
C2:
PF136371=Ank_4=PD(60.4=12.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGAATTACTTCCCGGCG
R:
GGATCTTCTCCAACAGCCGTT
Band lengths:
343-1074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]