GgaINT1016605 @ galGal4
Intron Retention
Gene
ENSGALG00000001648 | LASP1
Description
LIM and SH3 domain protein 1 [Source:RefSeq peptide;Acc:NP_001170800]
Coordinates
chr27:4065509-4067603:+
Coord C1 exon
chr27:4065509-4065616
Coord A exon
chr27:4065617-4067452
Coord C2 exon
chr27:4067453-4067603
Length
1836 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
CCTCTCATCCTCCTCCGTAGATC
3' ss Score
10.12
Exon sequences
Seq C1 exon
ATTCGCTACAAGGAGGAGTTTGAGAAGAACAAGGGGAAAGGCTTCAGCGTGGTGGCCGACACCCCGGAGCTGCAGAGAATCAAAAAGACTCAGGATCAGATCAGCAAC
Seq A exon
GTGAGTGCCTTCTGATCGCTGTGTCCGATGCTGCTGCGCTCCTCTGCTGCAGAGCTGTGTGCTGGTGGGGGGCGGGGGGGGCACACAGCATCACCGGGGCTGTCACCGTAACTCACCATCACCTGAGTGAGCCGTCACCATCACCATCAACCCACCTGAGCCCGGGCTGTCACCATAGCCCACTGAGCACCGTGTGGAGCTCTGGGCTGTGTCTATAAGAGACCCAGCTCTCCCTTTCCAAAAACAAGCAGCTCAGGTCTCTGGGTTGGCTGTCAGGCTGCATCCTGCTCCCCCCAGCCCTGTCCGGGTGCTGTGTGCACGATGTGGATGGCTGTTTCCATGGTGAAGAGGAGGATGAACACACACACACACACATACACACAGCTGCTGCTGCATGGGGTGCAGCCAACCTGGGGCACAGCAACACGGCCTCCTGCAGCAGCGCATCCCTCCAGCAGCACTCAGGGGGTTAATTAACCTTTAGCTGCTGGTGAAAGTCATGTGCACTGCCCTTATCTAACAGCCCAAGCTGTTGCAAAACCTGGCCCAGCAGCAAGCCGGGAAGTTCCTTGCTGAGCCCTGGGCCTGCCCTGAGAGTTGCAGCCTTGCGTGCAAAATCCCTTTGAGTTTCAGAGAGCTGCTGTGCCTGTGCAAGGAGAGGGAACCCACATGAAGGAGCTCATACACACACAAACACAGCACACCCAGTGGGGTTGGAGGCGGCTGTTTGTTCCCTCTCCTTTTGATCCCATCGTGCAGCTCTGGGCAGCACTGCGCTCTGCATGGGGGGCTGCAGGGCGTTATCTGCACATCCAGCCCCAGACCTGAAGGCTCTGCCTGGGTTGGGGACCTCTGGGTGGATTTTCCTGCACAGGAGGCGTTCAGAGCCCCACAGGCATCTGTCTGCCAGCCTGGCGTGGCCGTGACCCACTTAGCAGCCCCTGCATGCAGGCTGCTGTGCCAGCAGGGCTCTGCGCCGCGGGGGGATGAGCAGCACAGGGGCTGCGCGCTGAGCTGCAGCGCTGCCCCAAAGCACCCTCTGCATGGGGTTCAGGTGCAGCCCTGCACGGCAGGAAACCCTCCTGGGGATGGAGCTGTGCAGAGCCCGACGCTGTGCCTCTGAGCACAGGGAAGCACAGTCCTGCAGCAGCGTCCCCATCCCTGCAGCTCTGCTCCGGGCTTTGCCTCCCGCCTGCAGGGAGCCCTCTGGAGTGCCCTTCAGTACAGCACTGTTTAACCAGCAGACAAATGGGCTCCAGGTGCTTCCCAACGGCAGGGTATTCATTAACATGAACAGCTATTAATTTTTACACCGTGCCCAGGCGTTGGGTTAACCCTTTGCTGCAGTGTGTGCAGGGTGGGATCATTAAAGGTGCTTCTGCTCTGTGCTCCTGCAGTGCAAAGGAGAGGGAACAAACTGCTCCTGAGCCTCACCCCTGCCTGGAAACCTCATATATCCCACCCCAGGACCCTGAAGTCCTCCTTCCTCTGGGCACGAGGGGGAGTCACCCATTTCAGGCTGCCTGGTCCTCCCCATGTACCTTAGTGTGCATCCCGACCATAGTGATTCTCTGCCCCTTCTCCAGGCAGAGGCTTTGGGAGCCTCTTGCTCACACTGCACACACCTGAATGCTGAACCCTTCCTCATTTGGAGGGGCTCTGTGGGGTTTCCCTCTTTCCCATTCCTATGCCCACTCCCGTCTCGAAGCAGCCGCTGTGCTTCCTGCCCTGCTGCCCTTGTGGAAAGCAGCGAGCTGGGACCAAAGGATGCTGCTGGGGGGCCGGGGCCCTCAGATCTGCCCGGGCTGCATTCTGACCTCTCATCCTCCTCCGTAG
Seq C2 exon
ATCAAATACCATGAAGAGTTTGAGAGGAGCAGGATGGGCCCCAGCCCCAGCGAGGGCGCAGAGATGGAGCGCAGGAACTCCCAGGAAAGCGCCAATTACCGACGGCCGGAGCAGCACCAACCACAGCACCACGTCCAGCCCAGCAACCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001648:ENSGALT00000002516:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.861 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=21.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGCTACAAGGAGGAGTTTGA
R:
GTTGCTGGGCTGGACGTG
Band lengths:
254-2090
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]