GgaINT0098639 @ galGal4
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
laminin, alpha 3 [Source:HGNC Symbol;Acc:HGNC:6483]
Coordinates
chr2:102832096-102833737:+
Coord C1 exon
chr2:102832096-102832228
Coord A exon
chr2:102832229-102833594
Coord C2 exon
chr2:102833595-102833737
Length
1366 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTATTTATTTCTTCTTGCAGGTG
3' ss Score
12.47
Exon sequences
Seq C1 exon
AATGAAGTGAGGATAACTTTGAATGTGGAAAAATCAAACCTCTACTTATTTTGCATTATCCTGAGATATATTAACCCTGGAAGTGAATCATTATCTGGCCGCATATCTGCTTGTCAAACTCGGCCTGAAACAG
Seq A exon
GTAGGTATGACTCAACAGCACAACAGTAGATCAGATGACTGATAGATCAGAGAAGCGTTTCAAGATACAACTAATTCAAATTTGTATTGTCACTTTAAAATGCATTGCTTTTAACAGTGTCAGTGCTTCCGTGCTTTTCCTAATATACTTTGTTGTAACTGATGTGGCTGTGTTTGCATGAAACTTCTGCTTACAGTAGTAATCAACTTTTGTTTTTTAAATGGTTGCCAAATTTGCTACTTTCAGTTCTGTCCTCGAAAGTTCTGAACTTTGTGTTTTGTGAAGCTTTCAAATAAAGGATAACAGCACTTATCTTGATTTAGTTGCCTTTAATATTTCAGTTTAAAAGTAGCTTCTCCCTTCTAGCCATGAATAGTACTTATTGAAACTTATTGAAAGGGATGAACCCTTTCAATCAAGTTAGTTCTGTTTACAGACCTCAACAACATGTGATGACAACATGTGCTCTGATAAAAGATAAGTACTCCATATCCTTTGAATGGTAGAGACATACCAAGTCTGCGTTCAGGATTATCTCTTATTATGCCTACCATTATCACCCTGCTGAGAATCAATGAAATTTAGTCATAGTTCCTCCCAGTAATTTGGAGAGGACAGATCTGAAGTCTTGAGAGATACCACTCATCAGAATAGGAGCAATTTCATAGTCAAGTCTGGCTTACTCTGCCTGGCAGACAGGGAACCTGCTTGAAACAAAGCTTTTGTCTGTGTCTTGGAGCTTCCAAGAGGAAACCTTTTGCTATCCATAATGTTTTAGATGCATTTGAGAACCTCTGATATCTAAAATATGTGACAGAAATTTGTATGATAACAGGCCTTGTGTCTGTCAGTAATAATGAGAGATAGAAGGTAAGAAAACATTTTGGAATATTGCAAAACTGGCTATTATAAGGGAAAAAGCTCTTTACTATGAGAGTGGTGAGGTGCTGGAACAGGCTGCCCAGAGGTTGTGGATGCCCCGTCCCTGGAGGTGTTCAAGGCCAGGTTGGATGGGGCCCCAGGCAGCCTGGTATAGTATTAGATATGGAGGTTGGGAGCCCTGCCTGTGGCAGGGGGTTGGAGCTCAATGATCCTTGAGGTCCCTTCCAACCCAAGACATTCTATGATTCTATGAAAAAGTCTGCTTTTCTGAACCAATTTGCTCAAGACTAAAGTGAACGAAGATTGCAATAATTGCATAATTCTGTAATATACTGTGTGCAGTTATTAATACATATTGATAGAGGAGCATTGACAAGCTCCTACTGGACCGTGTGTATATGTAATCATAAGTTCAGAGCAGTAAGCAGGTAGAGACATTTTACAGTCTTATTTTTTACATTTATTTATTTATTTCTTCTTGCAG
Seq C2 exon
GTGCTGCTCAGAGCAAAGAGTTTGTCTTCCCACCCAGCAAGGAGCCAGCTTTTGTCACGATCCCAGGAAAAAACTCCACAGAGCCTTTCTCACTGGTTTCAGGAACATGGACTGTCAGTATAGTAGCAGAAGATGTCCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
AGTGAGGATAACTTTGAATGTGGA
R:
CAAGAGGACATCTTCTGCTACT
Band lengths:
271-1637
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]