BtaINT0084144 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008817 | LAMA4
Description
Bos taurus laminin, alpha 4 (LAMA4), mRNA. [Source:RefSeq mRNA;Acc:NM_001205965]
Coordinates
chr9:38739530-38743634:+
Coord C1 exon
chr9:38739530-38739678
Coord A exon
chr9:38739679-38743492
Coord C2 exon
chr9:38743493-38743634
Length
3814 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
CCAGGTTTGTTCATTAACAGGAA
3' ss Score
6.72
Exon sequences
Seq C1 exon
AATGCATCAGGGATTTATGCCGAAATAGATGGAGCCAAAAATGAACTTCAAAGAAAACTATCCAACCTGAGCAACCTCAGTCATGATTTAGTTCAGGAAGCTGTTGACCATGCACGGAACCTTCAGCAAGAGGCTGATGAGTTGAGCAG
Seq A exon
GTAACACCCTGGTTGTAAGAATGCAGATATCTCCAGACTGAGTAACTTATTTTTGTTCACTTTCACATGACAGGGTTGCTGGGATACAGTGTTAATAGTTTGTTTTTAGGGTTGGGTTTGTGTGTTTGTTTGTCTGTTTGTTGGTTGGCCAGTTTGAGAACCAGTTGTTTTTTCTGAAATTGCTCTGGGGACAGTTTTTCAGTTTTAAAAAATCTGTCAGATTAGAGATCTGTGTTGTAGCGGGGTAGCTCTGTTCCACAAGTAATAGGATAACCTAACACGTTTTAGTTAGGGATATAACTGCTCCACAAAATATTATCAGGTAAATCAGATCCCTCTGCAAGGTCTAATTCTGCCATCATTTCAGAGACAGCATGAGCTTTTCATACCCAGATGTCTTAAGTAAAGCTGGTAGGAAGTCAACAATATAAGGGACTTGTGTCAAATCCTCTAGCTGCTCCACAGTGCCTAGCCGGAACTATTTTATTTCAACACCTGTTAAGAGAGCATTGGTTGATGGTTTTCCTCAAAGTATCTAGAAGAGAGTCATAAGCACTCATTTAATGTTAATTTAAATGTACTAAAAGATTGGAGTTTAATTCATGATCCTGAAAAAAATAGGTAAATAACAAGATCATTGAAAAGAAAGATTGCAAATCTGGCAATTAGAAACAAGGATTGGTAAAGGTCATGAATTAAATAAGAACCAGTGTTCATTTCTGTTCAAAGCTAAATCAGCTTTTTTTCTGATTGCCAAAATTTTCAAATATGCTTCCAAGTCTCCCAAGAAGAGAGGGCAGGTTTGGAGTGGGGATGGATAGATCATGGGTAAAATCTTGGTGTGTGAGATGGTGTTGTATACAGCTCAGTGTCATGTTCCCAGGAAATGGGTTTTTTATCAAGCCAGTCAAATGGAACTTGGAGAAAATGCTATCTTTGGTAATAACTGTATTGGTAGGTTATTGTTTTTGAAATTAATTTTATGGCTGTCTTCGTCGTTCTTTTGTCATTTAGTAACTACAGCTGTTTGGGAGTTCCCCGGTGGCTCAAATGGTAAAGAATCTGCCAGCAATGCAGGAGACCTGGATTCAATCCCTGGGTTGGGAAGAACCCCTGAAGAAGGGACAGGCAACCCAGTCCAGTATTCTTGCCTGGGAAATTCCATGGACAGAGAAGCCTGGCAGGCCAGAGTTCATGGGGTTAAAAAGAGTCAGACACCACTGAGCCACTAACAGCTCATTGAACGGGATACCAACACAAACCTCTAAATGTCACCCAGCAGCAAACAGAGTTCTAGCTAGAACTTCTAAGGAAGTAACCCCAAGCTGTACATGAAACATAATCAGAAATATCAATCACCTTAAGTCTCCTTTTTATGTTTAGCATATTTCTACATATATTAAAACATCCAAATTTATAGATGTCTTCCCTTCAGAATGTGAATATTCTTCAACATCTATCTGGTATACCCAGTAGATTTGCATATTTTGTCTCAAATAGAAATACATACAATTCATCAAGAAGCTTCCATTTCAAAAGAACATTTTTTATTTTGTATATTAATATAGTACCCTTTTTGTGCCTAGTAATGAAAACAAAGAAAGGCTTTTTGTTTCAAATTCTTAGGTATATCTGCTCACCAACTCTAGCCAACACAATTTTTAAGTATTTAAAATATTGGTAACATTTTATACCTTTTATCCATTTCTTTTAAAACCTTCTCAGATTTTACTCTCTTTTCCATTTCTGAACAGGGAGTTATAGGGAGATATAAATAGCAAACATTTGGATCAGAATTACCTTTGCAGAGCAGGGCTGCATTATAATTTTCATGGGCTGTAAAAAAAATTTAATTATATGTCATAACTACCTTGATATAAAAGCTAATGTAAGAATTACTGTTATCCTCACTTTTCTTCTTCTGATTAAAAAAAAAAAAATTAACGTGAAAGCATCTTTGTGGGCCCTTAGTGTGCCTAATAGATATCAGCCCTATTGTAGAGGAGCCAGAGTGATGGTGAACTTGGACAAAAGAGAATAGAGTTGCCAAGGAAATACAGAGGAAGTCTCTCTGAGCCTAAGCCAGTGCGCAGAGACTGAAACTGCATGAAGGAGGCTGAGAAACGATTAGCTGAGCTCAGTAGGTCCAGGTGGTGTGAAGAGAGGAGCCAGTGTAGGATCTGTAGTGTCGTGTAGATCCCATCACAGTGACTCTTCTGAGAAGTTACTGATGAATAAAGTGATACTAGTCATCCGTATCCAGAGTTGGGGGGGAAAGGATGGAACTGGTGGGTTTAAGACTGAATAAACTTAAGACAGAGGGTTTAGGATGGGCTGCGGAAGTGAGGGTGGCGTTCATAGTATAGAGGAAGAAGAAGAGTTTGTCAGTAATATGAATTACTATGTGGATACCCATACAGTTTGAAATTTCCATTTAGGAAGTAGTTTAAGTGTAATAATAAGCCCTGAGATTCGCTAGATGCCAGGCACGGTACCAAGCACTAAACATATTTTATCCCTGTTGGACCTCACTTCAATCCTTTGAGGCGCATATTGTTATCAGCCTCTGCATGAGGGTGTCTACTGCATGATGTGCTGTGCTGTGCTTAGTCGCTCAGTCCTGTCCTACTCTTACGACCCCATGGACTGTAGCCCTCCAGGCTCCTCTGTCCATGAGGATTCTCCAGGCAAGAATACTGCAGTGGGTTGCCAAGTCCTCCTCCAGGAGATCTTCCCAACCCAAGAATTGAGCCCAGGTCTCCCTCTTTGCAGGTAGATTCTTTACCATCTGAGCCACCAGGGAAGCCCAGGAATACTGGAGTGGGTAGCCTATCCCTTCTCCAAGGGAACTTCCTGACCCAGGAATTGAACCAGGGTCTCCTGCATTGTAGGCAGATTCTTTACCAGCTGAAGCCCCCCAGTGCATGATGGGTACCAGTAAATATTAGCAGAACCTTACAGGAGTCAGAGGAGACAAAGGCAGAGAAAGTGGTGTAAGGATCAGGGTGATTGTGAGGTGGGGCTGTGCACTTAAGGGGAGCAGCTAGGCCTCAGGAATGAGACAGACCTTAACCATGTTTGCCTTGGGCAAGTTGTGCACCCTTCCTCAGAGCCTCAGCAACTTTTATGGGAAAGGAATAACAATGTCAACTTCACAGGTGTGGGAAGATGTAGAGATATAGTACATGGAATGGGGCTGACCCAGTATCTGCATGTGATGCTCAATACATATTATAACCCTTCTTCAAGAAATATGTGATCTGTTATATAAAAGAAAGAGATAAGATTGAATAAATAGAGTGAAACCAGCTAATATTTATTAATAACACCATGCTGAGGTTATGCACCCTCTCTGAGAGCCTTACTTTCTTTGACAGGGAGGGAATAACAGTGCTGATTCGGGTAAGCAGTAGGTGGGGATGAATGTAGGTTCATTCCTCTGCCTGACGCCACCACATAAACAAGCTCTTGCTTGAAGAGGTGCAGATGCTGTTTTAAAATCAGCATTTCCTTTCCCTGAGGCTGCTGCCAGGCAGGCAGTTGCCAAGGAGCCAAAACAAGGTGAAGTCTTGAAAGAACTAAAAGCAGAGGAATGGGAAGACGATGTGCCCCTAGGAAAGGCCAGGAGGTGGGAGGCGGGGCAGTGGAGGGGTGAGGAGGGGGCGTGTGGGTGAGCACTGCCCAGCCAGGTAACTTTAAAAAAACAAAAAGGAAGTGCCTATAGTCCTGGAAGTATTCTAATCAGACTCTAAAAATGGCCCTATTTCCCAAGGAGGTAAAAAGAGGCAATAATGCCAGGTTTGTTCATTAACAG
Seq C2 exon
GAATTTGCACAGTTCAGATATGAATGGACTGGTACAGAAGGCTTTGGATGCTTCAAATGTCTATGAGAATATTGCCAATTACGTTAGTGAAGCCAATGAAACAGCAGAACAGGCTTTGAACATCACTGATCGAATTTATGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008817:ENSBTAT00000011612:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.540 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]