Special

BtaINT0084423 @ bosTau6

Intron Retention

Gene
Description
laminin, gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr16:65743798-65747341:+
Coord C1 exon
chr16:65743798-65743987
Coord A exon
chr16:65743988-65747228
Coord C2 exon
chr16:65747229-65747341
Length
3241 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTTGGTTTTAAATCATGCAGATT
3' ss Score
5.68
Exon sequences
Seq C1 exon
CCAAATTTCTTGGGAATCAACAGGTGAGCTATGGGCAGAGCCTGTCTTTTGACTACCGTGTGGACAGGGGAGGCAGACACCCATCTGCCCATGACGTGATTCTGGAAGGTGCTGGTCTACAGATCACAGCTCCCTTGATGCCGCGTGACAAGACACTGCCTTGTGGGATCACCAAGACTTACACATTCAG
Seq A exon
GTAAAGAGAGAGACTGCAAGTAAGTCAAATAGAGCAAACGGTGTTTGAAGTCTGATTCCTTTGTTTATTCATTCAGTGATCATTCATTTATTCAACAAGCGTTTCTGAGCACCTTTATGGACCAAATATGGTGTTATGTGCTGAGACAGGTCATGACTGCTGCCCACCAGTCCCTGACAGGCTAATGGGGGAGAAAAATAAACTGATCATTGCAGCGCAGCTTGTAAGAGACAAAGTGGACACCAGTGTTCTGAATACATGCAGGAGGCATCAGTAACTTGCATTGGAGTGATGATCTAGGAAAGCTTACTGAGAAGATGTGACAATGAAGAGTAGCTTTCTAAGGAAAGAAAAGGAGTGAAGGTTACCATGGCAGAAAAAGTATGTTTGAGGAAGTTTTGTACATTTAGGAAATTCTAAGTGATTAGGCATGAGTGGAACATGGAACAGGGGAGAGGAATACAGTGAGAAGTGAGGTCAGAGAAGAGGCGGAGGTGAGGTCATGGATGGTCCTGTGTGTGTCTAAGGAAGTTACATGTTATCCTGTGAAATGGGAGATTTTTTGAAGTATGATTGACCTACAACACTATGTTAGTTCCAGGTCCATAACATAGTGATTCAATGTTTCTATACATTACAAAGTGATCACGACAATTCTAGTTACCACCTGGCCCTATACAGTGCTAGTAGATTCTTGACTGTGTTTCCCAGGCTGTACATTTCATCCTTGTGGTTCATTTATTTTATAACTGGAAGTTTTTACCTTTTAATCTCTCTCACCGTTCACTCACCCCCCACACCCTCCCTTCTTATGACTCTGTTTTTGTTTCATTATGTTTGTTTTTTAGATTTTACATGTAAATGAAATCATATTACATTTGTCTTTCTCTGTCTGAATTCTTTCACTTAGCATAACACCCTCTAGGTCCATCCATGTGGCTGCAAATGGCAAGAATTCATTCTTTTTATGGCTGAGTAATATTCCATCACACACACACACACACTCCACATCTTCTGTATCTTCTATTGATGGACATTTTCCATATCTTGGCTATTGTGAATAATGTTGTAGTGAACATATAGGTGTATTTCTCTTTGAATTGGTGTTCTTGTTTCTTTCAGAAGAATACCCAGAAGTGGACTTGCTGGATCATATAGTAGTTCTATTTTTAATCTTTTTGAGGAACCTCCACACTGGTTTCCATAGCACCTGAACCAATTTACACTCCCACCAACAGTGCACAAACATTCCCTTTTCTCCACATCCTTGCCAACACTTGTTATTTGTTGTCTTTTTGATAATAGCCATTCTGACAGGTGTGGGATGATATCTCATCGTGGTTTTGGTTTGCATTTCTTTGATGATTAGTGATGTTGAGCATCTTTTCATGTGCCTGTTGCCCATCTGTATTCCTTCTTTGGAAAACTGTTTATTTAGGTCCTCTGCCCATATTTTAATTGGGCTGTTTATTTTTTTGATGTTGAGTAGTTGTGTAACTTATTTGTATATTTTGGATAATAATCCCTTATCAAGTACATCACTTGCAAATATTTCTCTCTAGTACGGGAATTTTGAATGGTGGGTACAGAGAGTTCAGGGGAGGGGATGTGCCTATCACATGCTTAATAGTGTATCAGAGGCTAAGAATTCAAGATGAAGAAACATGGTCTTTGTCTTCTAAGAGCTCTTGTCTTGTAGAGCATGTTATTATTTGTGCCAACATAATACAGTATAAAGTCACTTCAGTGGTGGTGCATGCTCATGGGGACTTGGGAGGAAAGGAAGGAGTGGCTTAGTTCTGTCTGAAGAAGTCAGGAAAAGCTTCACTAGGAGAACTGTGTGGACTGAGAACAGAAATAAGCACCAGGCTTTGCCAGGGACAAATCAGGACAACCTGCATGTGTGAGTATATGTGGGAATGCACAGGTATAGTATAGGGCATTGGTGAGCAGTAGTTACGGCTGGAACACAGCTAGTACAGGGCAGAGGGGCAGATAAAGTTAAAAGGGCTGGGAAGAGACCCAGCATGGTGGTTCTTGGACGTCATGTCCAGGTGCTGAGATCTGGCCCATGCCTGCAAGATGATGGAAATCTATTGAGAGATTAGAAGTAGAGGAGCGACGTGATCAGATGTGGAGGCTGGGTGCAAATCCTGTGTGGAGGACAGTTTGGGTAGAGTCTTTAACTGAACCATCGGATCACATTCACAGTGGTTCAGATGAAGGTTGTTGGGGGCCTACCCCAGGGTAGAACTAAAGGCAATAATGTATAGAAGACCCACAACACACACTGTGTTCTTCAGTAACCAACTGCCGCTTATTCTGATGCACACACTTAGCTCTCCATGCTGGAACACCCATTCCCACAGTCTCAGCTTGGTGAACTACTCTTTGAGATTCAGCTTACAGGTTTTCCCTTTGTATTTGCCTTCTCAGAACCCCAGGTAAAGTTACAGTCCATCGTGAATTTCTGTGGCATGCTGTTCACGCATCTGTTATAGCACTCTCTGCATTGTATCATAATTACACGTTTACCCACCACCTTGGGTAGACATTGATCACCTCACTCTACTTGTCTTTGTATTCTCTGTCCTAACACAGCTTCTAGCTCAAAACAAGTGCACAGTAAATACTTATTTCATGAATCAGTGGATGAGGCAAAAGGGTTAGGGTTGTTCCTGGAAGAGCTATTCCAGTAAAAACCAAAAAACATTAAAATAAAAAAATGGTACAGGGGCTGGTGATGTGATACACCGAGGCAACACGATGCCAAAACTAAGAAGTATTAGATGTGGACAGTGTGAAAGGTGGACACTGGCTTGTGAGAAGAGGAGGTGAAACATGCTCAGATAACAAATCATTTAAACAACAAAACCAAACATGAATGACAGCTCTTAAAAATCAGAGCTTCTGGACTCAGAGATGTTCCTGCTATTAGGTTTCGTGTGACTAAGAATAGAAAGTGGTCTCTGAGGACTTGGACCCACACTGGATGCCGTAACCCCTGGAGTTCAGCTTCCTACACTCCATCACATCCTGTGGGGCTTGCATTGCCCACGGAGTGGGAAAGCTCCAGGCTTGTGCCTACAGGGATATGGCTCCCTGTCCTTTATCCCCCTCTAAGCAGGGCTGTGAAGGGGCGTAGTTGTTCCTGCACTCTCGGGCATAATTGAATCAGGTATACACATTATAAGATTTGATAAGAGTTGGATTTTTCACCTTTTGGTTTTAAATCATGCAG
Seq C2 exon
ATTAAATGAACATCCAAGCAGTAATTGGAGACCCAAGCTGAGTTACTTTGAGTATCGGAGGTTACTGCGGAACCTCACAGCCCTGAGGATCCGAGCTACCTACGGAGAATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000793:ENSBTAT00000061289:7
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:
PF0005213=Laminin_B=FE(48.1=100)
A:
NA
C2:
PF0005213=Laminin_B=FE(29.0=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
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