BtaINT0084445 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017473 | LAMC3
Description
laminin, gamma 3 [Source:HGNC Symbol;Acc:HGNC:6494]
Coordinates
chr11:101302934-101304752:+
Coord C1 exon
chr11:101302934-101303081
Coord A exon
chr11:101303082-101304602
Coord C2 exon
chr11:101304603-101304752
Length
1521 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGC
5' ss Score
4.61
3' ss Seq
AGCCCTCCATCTCCCGGCAGCCT
3' ss Score
7.79
Exon sequences
Seq C1 exon
GTACCAGGAGGTACAAGCGGCCCAGAAGGCGCTGGGCACGGCTGTGGCAGAGGCGCTGCCCGAAGCTGAGAGGGTGCTGGCCGCTGTGCAGCAAGCCGGCGTGGCCGCGGCCCTGCACCTGGCCTCACCTTCCGCCCCAGCATCACCG
Seq A exon
GTCAGCTTGGCTGTCCTTGGAGCTCCGCGTTGGGTGGGAATAGGGGAGAATGTGGCGGCTGGGAAACCAGTGTGGCCCTGGCCGAGGCAGATGACGTAGCTTATTTTTAGCTCAATAGTGGTTGATTAAAAGATAGGGCACCTCCATGGCCTGGCAGAGTGCCTGACTGGCACAGAGCTCAGCCAATCTTAATTATTGAAAATAATATTAAGGCCGAGGTCCCTTCTCCGTCACCGTGGCATTGGCAATGACACCAGACAGACATGGAGTTAAATCCCAGCCCCACCACTCAAGGTCTGTGACCTTGGCCAAAGCCCTTCCCCCTCTGTGCCTCGGTTACTGTGTCGGATGGAGCTCACCCTTTAGGTTATTTCTGGGCTGTATCCATCACGGGCGGGGAGGGCATTCATGCCTCACCTCTGGATAAATCAGTTCATCATGACTTCTCAGTAATCCTGAAATCCCAAAACTGGGGAGCTGAACTTAAAAAAAAAAAAGACTAAACATATAGAAATGTATCTGGGACCCAGCTGGTTGGGACTGACGGGCCCCAGGCTAAATGCTCAGGGTCCTTGGTTCTCCCGCTGTGTATAAAAAAGGAAAACATGGGTAGTGATATGTCTGGCTCTGAGTGCTGTTCCAGATACTACTAAAGGTGTTAGGTAAGAAGCAGTCCCCACAGAACAGTCTGAGTTCAGAAGTACAGGTTATTGATCCTCTCCATTAACACCTTTCCCCTCCCCAGAGTAAAGCTAGACAAAGGGCCAGTTGGATTGGACTAGATACTGGTTTTCAGGCCCCTTATCCTTAAAAGGAGCCCTACCTCAGATACTCAAACATTCCTAGGAATCACTCTGCTTGCCTCAAACAAACAAAACCAGGAAGTCACTGCTCAGCTAGGATTCATTTCTGCCATAGAAAAAGAAAACGATCTATTGAGGGTGTTTCTCTGACTGGCTGTTTCCAGGTATAAGATTATGAGGAATCCTAATCTACCTACAGTTGGTGGCTTCCCCTGTAGCTCAGTTGGTAAAGAATCTGTCTCCAGTGCAGGAGATCCAGGCTGGATTCCTGGATTGGAAAGATCCCCTGGAGAAGGAAATGGCAACCCACTCCAGTATTCTTGCCTAGAGAATCCCATGGACAGAGGAGCCTGGAGGGGTATAGCCCATGCTGTCGCAATAGTTGGACACGACTTGGCGACTAAACCACCACCACCACCTACAATGGACCAGTCCGTGTATTTAATTCAGACTGGAATTTAGAATCAAGTAGGGAGTCTGAGGGAGGAAACACAGGTCAGGAAGGTCAGCTGAGTTGCCTGAGGCCACGCTTCTAGAAATGGCTGGGGCTGGAATCAGGCCTCAAGTGACAGGTTCCCCAGCCTGGCTTCTCTCGCCCTGGCTCCTCTTCGTCTTGGGGGTCCACATGCAGCCTGACCCCCACCGTCTCTGCCCCTGGGCTTCTCCCATCCTTCTGCCCCTTGAACCTTTCTTGCCTGAGCCCTCCATCTCCCGGCAG
Seq C2 exon
CCTCAGAAGTCCCAGGCCGAGGCCGTGAGCCTGAAGGTGCAGACGCTGGAGAAGACAGTCACATCGAGAGAGCACATGGTGACCGAGGCTGCCGGGTCCCTGCAGGCCACCGCCCAGGCCGTGCTGCAGGAGATGGAGCCCCTAACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017473:ENSBTAT00000023245:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.680
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGAGGTACAAGCGGCCC
R:
CTGCGTTAGGGGCTCCATCTC
Band lengths:
294-1815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development