GgaINT0112342 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15860846-15862348:-
Coord C1 exon
chr1:15862172-15862348
Coord A exon
chr1:15861015-15862171
Coord C2 exon
chr1:15860846-15861014
Length
1157 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCATCTTGTGTTTCTATCTGGAA
3' ss Score
1.39
Exon sequences
Seq C1 exon
ATTCAATCCGAAAATGCAGCATCTGAAGAAACACTGAACAATGCCACTTTACGTCTGTTTGCGCTTGAGAGGAGTGTTGAAGACCTTAAGCAAAAGGCTGCTACAAATTCAGAAAATGTGGGCAACATAGAAGAAAAAATCATTTCTGCAAAACAAAATGCTGAAGAAGTTAAACAG
Seq A exon
GTGAGAAGTTTGGGAAAGATACTAAAGGAGAGCCAACAAAACTCACCCTGGGGTTGGGTAGATGAACACTACTGGATTCCTTCAGTCCACTTAGTTTATTGGCTAAGTGCTGGTGACAAAAAACAGTGCCTAATGCACTTGCTGAAGTATTCTTTACTCAATCTGTTACTAAATGTAAAGAGAGAGAAGCATTAGGAAGTTGTCAGGTTCAAAAATAGTTGCAGGAAATATGCCTCACTGCCACACATCAGCCTTTCGCAGATTTGTTTCTGTCCCTCAGCTTCACTGTCTGCCACAGCTCAACTGGCAATTTTATTTTCCATCTGTATTTGTTTCTATAGTGATGTTCAGGCCAAACAAACCCTAGTTGGGCATATACAGAACCAAGTGGCAAGAATAAATCCTTAGCTCAGTATAAAACTAGTCTCATTTCTAAATATCAGAGATGCAGAATTCACTCCAACCATATGGCCTAATTCCCAGTGTCTGCTATACACCTTCGTAATACCAAAAGAATGTTCATTAACAAAACAATTGACAAATCTGCCAAAGGAAGTTTTCATTGCTCCAGTCTCTTGGCTGGAATTAGCCCATCGGTCTCAAGAGACGTTTTCTGCTAAGAGGGATGTATTATCCGTCAAACAATTATTTCCAAGCACTAAGTAGTATTTCAGGTGGTTATCAGATCCCAGAGGGTTCAAGTACTGCTGCAGACTGTTAACTTGCTTACTAGTTGAATTCATTTGTGCTGTAGCACTCCTTAACCTCACAGGGAAAAAGCACAGCTGAGAAGTGAACCTGATGTCTTCTCCAGCACCCTCACCTTCAAGAGCCATGCAGCTGTTCTTATGGAAAAGGCAGCAGTGTTGTTCCTCCCCCACTGCTCCGTTGTGTTAGGGGCTGTGACTTCCCAAGTTCCAGAATTGGGTAACTGCAGTCCATGCTGAGTGTTAGAGCTGTAGGACAGCCACAGATGTGTAAGAGGGCACTGATGAATCTTCGCACCCACTCTTCAAATCTTGAATATGAAACAGGAAATCCCTCGACCCTGTTGTTGCTTTTGTTACCCGAGCTGACACTGTGCTCTCTTTAGCCCGGATATTGAGCAACTCCTCCTGCATTGTCTTTTGAGTGGCTCCATCTTGTGTTTCTATCTG
Seq C2 exon
GAACAACAGGTCCTCGACACCGAGCTGAACAGCAAGTACAAAACCGTGGAGGATCTCATCACCAAAAAGACAGAGGAGTCTGCTGATGCGAGGAGGAAAGCAGGCTTGTTGCAAGAGGAAGCAAAGGCATTGCTGGCTCAAGCCAACAGCAAGCTGCAGCTGCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.246
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:
TCAATCCGAAAATGCAGCATCTG
R:
CTGCAGCTTGCTGTTGGCTT
Band lengths:
334-1491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]