GgaINT0112341 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15862172-15863270:-
Coord C1 exon
chr1:15863129-15863270
Coord A exon
chr1:15862349-15863128
Coord C2 exon
chr1:15862172-15862348
Length
780 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ATTGTCCCTCTCTCTGTTAGATT
3' ss Score
9.44
Exon sequences
Seq C1 exon
CAAAGGTGCAAAAGACGTTAAAGTCACTGCAGACATGGTGAAAGCAGCACTAGAAGAAGCTGAAAAGGCTCAAGATGCAGCTGAAAAAGCCATAAAACAAGCTGATGAAGATATTAAAGGAACTCAAGACCTGCTGACCTCA
Seq A exon
GTAAGTTATTTCCAAGTACTCTTTAAGATGCAGAAACAGGAATACATCTGATATTCAGAAACCAACATAAGGATGTCTGAGGAAGGCTACACTTAAAATGAGTCTAAACTATTCTGGCCTTTATTATATAAACATCTGAGTCAGAATATGACATAACTAGAGGCCTACATGCTCTTCAAGAAAAAAGGCTTTTCTCACCCCATATCGTGCACCACTGAAGTTACATGAGTAGGATCATAGCAGGTGTGCCAAGGTCTCTATGAAGTCATACATATCAGTCCCTTGGCAGCAGTGTATTGGCATAACAGCGCTATCTAGCAGTGCCATTCACTGCAGCAGGAGAAAACTGATGCTAGATAGAAGTGGTAATTGCTGTAATTGTGACAGATGATGTATTTTCAGGCTTTAACTCATAATTCTCATGAGACCATAGTGCTAACTCTACCCCTTCAGTTTGGCCAGCTTAAGAGATGGACAACTTCAGACATTTAGCGCTATCCTTTGATAATGACTGTTTGCAGATTGAGCAACTTTCGAACGTATAATGCAATCAAGGCTTTCTTAATGAAGCTCCCTCACACTTCTGAAGACCTCACTGTACGTCACCTTACAGCAGTAGGCTCTTTCACCCCAATTGCAATTGTACATTTTTAACAAAATGAAACACGTTAAGTATCAGATCTATTGCTGTGACCTAATGGGTTGATCAGAACTCACTCAGAAAGCTTCTATCATATTCAGAGTCTTTTGAAAGTGTATCATTGTCCCTCTCTCTGTTAG
Seq C2 exon
ATTCAATCCGAAAATGCAGCATCTGAAGAAACACTGAACAATGCCACTTTACGTCTGTTTGCGCTTGAGAGGAGTGTTGAAGACCTTAAGCAAAAGGCTGCTACAAATTCAGAAAATGTGGGCAACATAGAAGAAAAAATCATTTCTGCAAAACAAAATGCTGAAGAAGTTAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.441
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:
AAAGGTGCAAAAGACGTTAAAGTCA
R:
CTGTTTAACTTCTTCAGCATTTTGT
Band lengths:
318-1098
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]