GgaINT0124713 @ galGal4
Intron Retention
Gene
ENSGALG00000008819 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:HGNC:25135]
Coordinates
chr17:1544214-1545480:-
Coord C1 exon
chr17:1545390-1545480
Coord A exon
chr17:1544345-1545389
Coord C2 exon
chr17:1544214-1544344
Length
1045 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTGCATCTGATCTCTTCCAGAGT
3' ss Score
8.6
Exon sequences
Seq C1 exon
ACACTGACCCTGGATGCTTCTTCCATGACCTACCCATCACCTGATATTTGCAGTGCAGGTACAGAGTCCATTCAGCAGTTCCTCTGCAAAG
Seq A exon
GTAAGTGAGAAGAGTCTGTGGATGCTGGTGAGAACTTGCAGGGCTGTATTGTGCTCTAAGTGCTACAGCTTGTTCAAAGACTGTATTTACAAAGGACAAACATGAGGGTGGTTCTGCTTCAGGTGGTTTCTGATGCTCTGCACACAGGGCAGGCAGGTCAAGAAGTTATGTGTCAGTAAGTCTTTGCTGGCAGACAGCAACATAGGAGTCCTTCCTTGAAGTTTGCTTCTCACTATCAAACTGAAATTCAGAAAGTTTTTGTTGAAACATCTGGACAGCTGGATCAGAGACTTCCTGAGTGAAGTCCCTGCATCTCTCTGTGCTTTTGTCTTTTCCATTTGTATTTTCTCCAATGGGAGGTTTTGGATCCATCCAGATACAGCTGATGCTGCTTTGGGATAAGGAGATAGACTGAGTAGGTCCCTTCTACCCTCATTTTCTATAGGGATGGGCCAGTGGGCTGATATTCTCCTTAAGGAAATATGAAAACAAATTGAAATCTCAGAGGGAAAAATTACCGGACTGTGAGTTTATAAACACTATATTTAATACAAACAGGAAGTCCTGGCAGAGATTTTATGCAGGTGAAGTGCATTGTGCTAATGTTTGAAAGAAAAGGACTGTCAGAAGTTATTTGAATGTGAACAAATTATCTTTTGCAGCCCCACAGAAATGAATATGTCAGTATCCATGTACAGGAAGCTTTTCCCTCTGAGTAGGTCAGCAGAGCATCAGCACAGCTCCAAGTGCTCAGTCTGTTTTTGGAGGGTATCCTCTCCAATGATTTTAGAAATGGGAGCAGCACTCTCAGCTTCTCTGCTTCCTCCCTCCGTGCTGTGTTTTAATCATCTGCCTGGTGGGAATGAGATAGCACTATCTCTTCTCACAGCTTCTTGTTGCAAGACCTGCATTAGTTCTTATACCATATATGCTTGGAGAGAGAGAGCACAGTTGGAAGCTGTCTCACACATAGGCCAGCCTTCAGCCATGCTGCCAGGAGGTCTTTAGGCACCAAATGTCTTGTTTTGCATCTGATCTCTTCCAG
Seq C2 exon
AGTGTGGAATTGCATACTACCCTCCCTCAGAGTACGTGCTCCCTGCACTGGAGAGTGATGGAGGAGAAACATCAGTGGATGGGGTGGACAGGACAGTGCACAAATACTTGGAGGAGGAGAGCAAGTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008819:ENSGALT00000014334:9
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=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACACTGACCCTGGATGCTTCT
R:
CTGCCACTTGCTCTCCTCCTC
Band lengths:
222-1267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]