GgaINT0112343 @ galGal3
Intron Retention
Gene
ENSGALG00000007905 | LAMB1
Description
NA
Coordinates
chr1:15859501-15861014:-
Coord C1 exon
chr1:15860846-15861014
Coord A exon
chr1:15859933-15860845
Coord C2 exon
chr1:15859501-15859932
Length
913 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCCTCTTCCTTTGCTGACAGAAT
3' ss Score
8.42
Exon sequences
Seq C1 exon
GAACAACAGGTCCTCGACACCGAGCTGAACAGCAAGTACAAAACCGTGGAGGATCTCATCACCAAAAAGACAGAGGAGTCTGCTGATGCGAGGAGGAAAGCAGGCTTGTTGCAAGAGGAAGCAAAGGCATTGCTGGCTCAAGCCAACAGCAAGCTGCAGCTGCTCAAAG
Seq A exon
GTAAGGCTGCTCTGAGGAGGCAAGGTACTGCTGTAGAATACAAAGTGCTATCGTGCTGTTAAACCAAGGTGTTCATCAGCAGCAGGAAAAGAAAAAAAGAAAGGTAATTCTTTGGTGCTGAAGTTTGAACTGCTTTTCTTATTCTTACGGACACAGCATAATCATGAATCAAAGGTTTGTATCAAAGAGAGCAAAAACCTGCAGAGAGACACAAACTTCTGGTATGGCACCTATCACTGCCCAGAGAATCACTACACAGAAGAATTAGACAGAACATAAGTAACCACGAGTAGGATGAGGACAAACTCATTCAGCAACACCAAAAGCAGTCAAACTCCTGACAGACAACCCAGAACACCATCTTCAAACAGTGTTCCCCCACACACCCCCGGGACTGCAGTTAAATCAAAGGGTAATGAGGATACAGCAGTTCCAGCTTACAGATGAATCTAACACAATGGCCAGTTAAAGCCAATTGAAACAGGAGGGGGCAGTCAGCCCATAACTGCCAGGGAGGAAGCAAGGTTTTCCTTCTGTTTTTGCCAGGCCAGGAACCAGTGCTTCCCTTCACTTGTTCCTGCACAGTTACAATGACTCACTGAATATTTGGACTGTAACAAGCCAACACTTCTCACATCAACAGAAGAGCCTCCTAACTGTAGGGAATGGCAGTTACTGTCAACATGAATCAAAGCACACTTTTTGCACTTACAGAAAATTACTTTTGTTGCTTTATGTCCCAGTTCTAGAGAAACAAAAGGAGCCATTTCAGCCTTTGCTACTACAGGTCACTTTTTCTTCCATAAGAAAATAAATCTGAATGGTAGTTTTTTTCTGTAACAATTATGATTGATATTTTTACCACATTAAAACATACCTAATTAAGCTGTTTTTCCTCTTCCTTTGCTGACAG
Seq C2 exon
AATTGGAAAATACGTATGAAAACAATCAGAAAGTTCTGGAAGACAAAGCCAAGCAGCTGGTGGAGCTGGAAGAGACCGTGCGCTCCCTCTTACAGACAATCAGCCAGAAAGTTGCTGTGTACAGCACCTGCTTATAAATGGGAGCAGGAAACACTCGTGTTGAGGATGGATTTAACAAGTATTACACTAGTTGTTTTTGACATTACACTAAGACCTGATAAAGTGAACAGGTTTGATATTGACTTCTAAGTCACAGAACCAAAGAGAAGTAACTTTTTGACATTGAAAATAAACAGTACTTTTGTATCACTGTATGTACCTAGTATGACTCATTAAGTTCTGTGTTATTTTCAATAGCTGAAACTAATCCTTGAGTTTCTGCAAGTCTTGTTTTTAAACTAGCTAGAGATCTCCTAATAAAATACTGGTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007905:ENSGALT00000012832:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.000
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:
GAACAACAGGTCCTCGACACC
R:
AAATCCATCCTCAACACGAGTG
Band lengths:
342-1255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]