GgaINT0124711 @ galGal4
Intron Retention
Gene
ENSGALG00000008819 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:HGNC:25135]
Coordinates
chr17:1546842-1548215:-
Coord C1 exon
chr17:1548131-1548215
Coord A exon
chr17:1546964-1548130
Coord C2 exon
chr17:1546842-1546963
Length
1167 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
AATGACTTCTCACTCCATAGGCA
3' ss Score
9.25
Exon sequences
Seq C1 exon
GTCCTAAACCTTGAAAGGAATCTCTTAAAATGTCTTCCACAATCTATAGGGGATCTTGCCCAGCTCCAGGTCCTCAATGTGAAAG
Seq A exon
GTATGACATGTTTCTTGTTGGTGCTTGGGCAAAGCACCATTAATTTTCTGGGTTGTGTTGAGCTGCATTAGTAATTATAGCTTTTAACCAAGGCAGGCACCGAATGGTTTCCATTATGAATACTAAGGAAGAACATAGGACAGACTTGAATTCAAATAGTTGGTAAGGCAGGTGAAATCTAAGTAGAAAATAATTCCCAAAATTTCCCCAAGTTATTAGGATTAACTACGGTTGTTTGACTGCTTCTTAGCAAATGTGCACACTGTCTGCCTCAATTTTCTTCTGTGTGGTTCTTGAATGAGGACTCATGGCTCTTGAATGAGACAGTCATCATAAAATGATTCCTTTCATCCCACTGCCCCTTTTCAAAGGACAGGTTGTTGGATCATTCCTGATCTCAAGAGCTGAAAGCTTCCTTGTGTGCCTGCATGTAGCCAGCACTTCAGAACCCAGGCTGACTCACTTGTATGTTGAGGGGTGCCACGAGGGCCTGGAGGCACATATCTTCCTCCAGAAGCATGAGACTCAGAGCTGGGCACTTGGAGCCCAGTCCTATGAGCTTGTTCACTTAACCCTTCCAGGTTTGCACAGCCCTAGAACAGAGGTCACAAACATACCTTTTTAGAATACTTTTGGGCACTGTGTCATTAATCTGGGAGAAAAAAAGAGGCATTGTTATAGACAGCTGCTGCTGAAATGGGGAAGCGGATGAAGCGCAAAGAACTCAGAAGTGCAGCTCAGCTTTCAGCTGTATCTATCTGGTCTCTGACCACTAAATTTGCAGTCCCACATTCAGTTTCTTTTGTCTTGTTTCTCATCCTTACACTGAAGGGCGGAACGTCCCGTGTTACAAATATTGTCCTAATGAAGAGCAGATTGAGTCTGTTGCAGTGGCCTCAGCTGAGAAGGCTGGTTTGGCTTGCAGAAGCACTGCTGGGTCTGTGCAGCTGGGCTGTGTGCAGGTAGATCTTGAGTCCCATTTGCCTCTGTTGGCGACACAGTGCTTGGAGTCTTAGTGCACCCCATGACAACCCCATCCCTGCAGCACAGTATAGAAGATAACTCACAGGAGGCTCTTACAAGTACAGATTAGTGTTCCAGTAGATGAGCTTGCTGTTTTCTGCATCAGCAGTGCTACGTGCTACTAAATGACTTCTCACTCCATAG
Seq C2 exon
GCAACAAGCTGAGGGAGCTGCCTGCTACAGTGAGCGGTCTGCGGAGTTTGCGCACTCTGAATGTCAGTGAGAACCTGCTGCAGGAACTGCCAAGAGTGCTGGCTCACGTCCGCATGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008819:ENSGALT00000014334:7
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:
PF127992=LRR_4=PD(36.4=55.2),PF127992=LRR_4=PU(20.0=31.0)
A:
NA
C2:
PF127992=LRR_4=PD(77.8=85.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAATCTCTTAAAATGTCTTCCACA
R:
CCAGCATGCGGACGTGAG
Band lengths:
190-1357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]