BtaINT0084420 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000793 | LAMC2
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr16:65737306-65741032:+
Coord C1 exon
chr16:65737306-65737404
Coord A exon
chr16:65737405-65740895
Coord C2 exon
chr16:65740896-65741032
Length
3491 bp
Sequences
Splice sites
5' ss Seq
TAGGTCTGT
5' ss Score
3.44
3' ss Seq
TTTCCAAAATGCCCCTGCAGGTG
3' ss Score
9.13
Exon sequences
Seq C1 exon
AGACTCCAAGTGTGACTGTGATCCAGCCGGCATCGTGGGGCCCTGTGACACGGGCCGCTGTGTCTGCAAGCCAGCTGTCACGGGAGAGCGCTGTGATAG
Seq A exon
GTCTGTGTGAACTGTGGCCCTCTGGACACAGCAGGAGGTCCCCTGACAACCAGCATGAGTGCGGTTCATGGAAAAGGGACACTTAACCAATGTTGATGACCTTCTTCCTGCTCCCTGGCCTTAAAAACTAGACCTTATTATTATTAGTTTTTTTTATTTATCTTTTTGGCCACACTGCACGGCATGTGTGATTTTAGTTCCTTCACCAGGGATGGAACTCGAGCCTCCTGTGTTGGAAGTACAGAGTCTTAACCACTGGGAACTCCTGCAAAAACTAGGCTTTAAAAAAAAAATACAAGCAAAGGATTTCCCTGGTAGTCCAGTGGCTAAGACTCCATGCTCCCAATTCAAAGGGCCCAGGTTCGGTCCCTGGTCAGGAAACTAGATCCTACATGTCACATAGCTAAAAGTTTACATTGCCAAAATGAAGATGAATATCCCACATGCCACAGCTAAGACTCGGTGCAGTCAACTAAATAAATAAATAATTTTTTAAAAATACAAGCAAGGCCCCAAATCTCACTAGACTCCACGCTTTTGCTCTGGGTGCCTTCTCTGTGTATGCTGTGACAGGGCCCTGGGGAGTCCCTGGCCAGCTGGCTCTCAGTCCCAGGTGCTCTGTACAAGGTATGCAGGGATGAAGCCTCATGACTCAACTCAGTCCCAGGGAAGGCCTGGCCTAAGTAAACATGTTGGGAAAATCTTAGTCAGTGGAAATACTGCAGCATATGGCCATAAATAACCATTGTGTGCAGACGAGGACCTGCCCAGCGATGGGATGGTGATTATGTGCACACACACAAACTAGGGGAGGATGTCAGAGCCACGTTGGGGCAGGTGGTACAGTGAGGCCGATCCGCCCCCAGTTGCTGCTGCAGGAAATTCCTTAAATACAAACTGAGCCTGGACTTAAAACTCTTCGCTCCCCTGAGACTATTGTAAGCGGAGGGCTGTGAGGTGGGCCCCAGAGGTAAAACCTTCCCCCATATTTCCTTCAAAGAAAGAAAGCAGTTCTTTGGCATGCAGCCAATCACTTATACCTGGGCAGAGGCAATGCCAGGTACATTCCTGGCTTGTGTTTTCAGCCAGTTCTTTGCTACTGGAGTGGGGGTGGTGAAACATAGCTTAAGTGATACAAGAGGAGTCCTTTTCTGAAAACCTTCTAAATTTCAAAATAGAACAGAGAAATAGAAAATCTAATAAAACAAATGTTGTCAGCCGCACTAATTATATGAAATTCAGTTCAGTTCAGCCACTCAGCAGTGTGCTACTCTTTGCGACCCCATGGACTGCAGCGTGCCCGGCCTCCCTGTCCATCACCAACTCCTGGAGTTTACTCAAACTCATGTCCATTGAGTCGGTGATGCCATCCAACCACCTTATCCTCTGCTGTCCCCTTCTCCTCCTGCTTTCAATCTTTCCCAACATCAGGGTCTTTTCCAATGAGTCAGTTCTTCACATCCAGTTCCAGTTCAGTCGCTCGGTTGTGCCCAACTCTTTGTGACCCCATGAACTGCAGCATGCCAGGCCTCCCTGTCCATCATCAACTCCCAGAATCTACCCAAACCCATGTCCATTGAGTCAGTGATGCCATCCAACCATCTCATCCTCTGTCATCCCCTTTTCCTCCTGCCCTCAATCTTTCCCAGCTTTAGGGTCTTTTCAAATGAGTCAGCTCTTTGCATCAGGTGGCCAAAGTATTGGACTTTCAGCTTCAACATCAGTCCTTCCAATGAACACCCAGGACTTATCTCCTTTAGGATGAACTGGTTGGATCTCCTTGAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCATAGTTCAAAAGCATCAATTCTTCTGTGTTCAGCTTTCTTTATAGTCCAACTCTCACATCCATACATGACTGACTACTGGAAAAACCATAGCCTTGACTAGACGGACCTTTGTTGACAAGGTAATGTCTCTGCTTTTCAATATGCTGTCTAGGTTGGTCATAACTTTCCTTCCAAGGAACAAGCATCTTTTAATTTCATGGCTGCAATCACCATCTGCAGTGATTGAAGCCCCCAAAAATAAAGTCAGCCACTGTTTCCACTATTTCCCCATCCATTTCCCATGAAGTGATGGGACCAGATGCCATGATCTTAGTTTTCTGAATGTTGAGCTTTAAGTCAACTTTTTCACTCTCCTCTTTAGAGGCTCTTTAGTTCTTTGCTTTCTGCCATAAGGGTGGTGTCATCTGCATATCTGAGGTTATTGATATTTCTCCCTGCAATCTTGATTCCAGCTTGTGCTTCTTCCAGCCCAGCATTTCTCATGATGTACTCTGCATGTAAGTTAAATAAGCAGGGTGACAATATACAGCCTTGACGTACTCCTTTTCCTATTTGGAATCAGTCTGTTGTTCCATGTCCAGTTCTAACTGTTGCTTCCTGACCTGCATACAGATTTCTCAAGAGGCAGGTCAGGTGGTCTGGTATTCCCATCTCTTTAAGAATTTTCCAGAGTTTGTTGTGATCCACACAGTCAAAGGCTTTGGCATAGTCAATAAAGCAGAAGTAGATGTTTTTCTGCAACTCTCTTGCTTTTTTTATGAAATTGGCCTTTGCTAAAAATGTACCAGCCCCACAATATCCTCCCTCCTTCCTAGAAGTGACCTCCATTCTTCATAATTTATCTCCCAAGTATATCCTTAAGCACACCCCTCCCTTCCCTTTCTGCCTTCATCATTCTTTCTTCACCCTTTCTCTGACTCACTTCTTCCTTCACTTATCCCTCCCCCCTTCCTTCTTTCCTTGTTTTTTAATCTCTTTTAATCTGCAGTTTTCCTCCACAGAAACTATAATGAGTATTTAAACCCTTGATCTATAGAGGAAAAAAAAGATATTTATTTACTGCTGTTTTATGTAGCATCTACAGTTCACAGCTAGCCTGCCTTTCTGATTTTGCACAATGGAAGTGAAGTGAAAATGAAAGTTGCTCAGTCATGTCCAACTCTTTGTGACCCCATGGACTATACAGTGCATGGAATTCTCCAGGCCAGAATACTAGTTTGGGTAGCCTTTCTCTTCTCCAGGGGATTTTCCCAATCCAGGGGCATTTGCCTGTCTTTTGATGGCCCCCACTTCCCACCCTATTATCCCCTTTAAACACTTGCTCTAGGACTGGGCCAACTCTACACAGCCCTACCTGACCCCTCCCCATCTTGCCCACTGAATTCCTTACCAAGGATGGGAAAAATCACCGTTTCCAGACCATCACGCCCAATTTGTTGCTGCTCTACTAGAGCAAGAGAAAGTGAATATTCTTCTTGCTTTCTTAATGGGGGCCTGTGATTGTCCATCTGGAGGTTTGGGAGTGAGAGTGGTATGTGCAACTGAGTATTTCTCACCTTTGGGAATTAATGGGCTGGGTGGGAGAGAAAGTAGAAATGATCAGTCACCGTATTCTCTGTGGGGATGAGAAATAGCCTATAATATTGTCCCAATTTCCAAAATGCCCCTGCAG
Seq C2 exon
GTGCCGACCAGGTTACTATCACCTGGATGGGAGAAACCCTGAGGGCTGCACCCAGTGTTTTTGCTATGGGCATTCAGCCAGCTGCCAAAGCTCCGGAGACTACAGTGTCCATAAAATCACATCTACCTTCCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000793:ENSBTAT00000061289:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PU(63.0=85.3)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(34.8=34.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development