BtaINT0130921 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020489 | SEMA6A
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:HGNC Symbol;Acc:HGNC:10738]
Coordinates
chr7:38747691-38751480:+
Coord C1 exon
chr7:38747691-38747781
Coord A exon
chr7:38747782-38751360
Coord C2 exon
chr7:38751361-38751480
Length
3579 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TCTCCTCTTTCTCTTCAAAGATG
3' ss Score
10.22
Exon sequences
Seq C1 exon
ATGGATACTTTGGAGCCTGTGGGTGATGAATTTAGCGGAATGGCCAGATGCCCTTACGATGCCAAACATGCCAATATCGCACTGTTTGCAG
Seq A exon
GTAAATGACCTGATTTCCTGATTTCTCCTCATTGCATTTGTTTTCATGGGCTCAGCCTGTGGCTCTGGAGGATTTGCAGAGTCACAGTTGTACTTTGATTTTCTGGTGACTACTGTAACTAAGAAAGCCTTTTCCATTTGAAATCATATGGAAATTGTACTTTTGTTTTTTTATTGCTGTTCAGTCACTCAGTTGTCTCCAACTCTTTGCGAACCCGTGGACTGCAACATGCCAGGCTTCCCTGTCCTTTACTATCTCCTGGAGTTTGCTCAAACTCGTGTCCATTGAGTCAGGGATGCCATCCAACCATCTCGTCCTCTGTCGTCCCCTTCTCCTCGGGCCTTCAATCTTTCCCAGCATCAGGGTCATTTCCAATGAGTTGGCTCTTCACATCAAGTGGCCAAAGTATTGGAGCTTCAGCCTGAGCGTCTGTTCTTCCAGTGAATATTCAGGGTAGATTCCTTTAGGATTCACTGGTTTGATCTCCTTGCTTTTTCTTTTTTCTCTCCTCACTTCTTAAGACAAGTCTTTGCCATGCTTACCCATGCTTCTCTGCCTTTAGAAAGAGTAACAACTTTGCACTGAACATGCGACATACTGGTTAGGGCGTGTCTGGGCTGAAGTAATAGAAAATCCCACCTCAAACCCCCAGTGTGAACTGAGTATTTAAGGTGGGGTAGACTTTGGGGTTGCTTTGATTCAACAACTCATTCATCTCATCCAGGACGCAGGTCCTTTTCATTTCTCTGCTCAGTTTTCTTTCTTTCTCTGAGGGAGACTGGCTGTTCTCACAGTCATAGGATGGCTGTTGGGTCTTAATTAGGGCTACATATCCTTTTGTCTGGGCTTCTCAGGTGGCGCTAGTGGTAAAGAACTCACATGCCAATGCAGGACACTTAAGAGACATGGGTTTGATCCCTGGGTTTTGAAGATTCCCCTGGAAGAGGGCATGGCAACTGACTCCAGTATTCTAGCCTGGAGAATCCCCTGGACAGAGGAGCCTGGCAGGCTACAGTCCATAAGGTTGCATAGAGTTGGACGTGACTGAAGCAACTTAGCACATAAATGCATCCCCTTGTCTACATATAGAAGGGAGAAGGAAAGAGGCGAAAGGAAGCTTCTATAAGCTCTTTCGGTTACCAGCGCATCTTCTCAAATATCATGACCTCATGAGCTTACATGCCTCTCTGATAAAACTGTAGTGGCCAAAGGGATGATACTGATGATCAGAGGCTGACCAACACTCCCCATTGCTACTCCTTCCTTGCACTGCAAAGGATATAGAATGAAAGCAAATAAGCCATGACTTTCAGATGGGGATTTTTGTGTATGTATGTGGGTGTTTTATTGATAATTAGAAATTTATTTAGGAATTCATTGCCAGCTGTGCTCGTTGAGGTGGGTGCAGGGAGAAGTATTGGTATAGGAGCTCCTCCAAAGGTAGAGCATTCCTAGCAAGCAGCCTTGTAAGAAACACAAAGTCATGTAAACCTATTTGTAAGCATGGGCAGGGGCAAGGCCACTAAGAGCTTGAGGATTATATTCCTAAGTGCCTAACTTCTACTGCAGCACTTTTCTGACACTTGGAACCTGCATTAGTAATAGAGTAATGGAGGTTGTGGACTGCAGTGGAGAATGTAAATTTAATAAGGAAAAAGAGGCACCCCAAGGTAGAAAGAGGAGAATGAGCAGAGTGTTTTCCGAGGCCACCAACCTTCCAAGAGCAAGCCCCATGAAACCATCCTGTGGCTGCCACTCCTCCTCCCCGGAAGGTGTATCTGAATCCATGTTCACTGAAATGCTTGAAAGCTCTTAAAACTTCCACCATTATAAACAGAAGATACTTGTTGCCCCTGAATAGTTGTCATATTACCTAGAGTGACAAAATAGTACTCTATTTTACGAGTAAAAGTTCTGGCAAGATATCCAGTTTAAAATGTAAAACAAAGAGTATGGAGGAGTGTTCAACAGCAGTAACCACATACCCACACACACACATACCCCCCACTGTCCTCTCCTCCTCAGGTATATCCATATGACCCGGAGCTATGATTCTATAAGAACAATTGTGATTTTTGCAGACGCATGTGTATCAGTAGAAAGGTTTGCCATCTGCAGCCAAAATCTAATCCAGAAGGTCAACACGTACAGATATATGACTGCCAATAATGTAGATATGAAGACAGCTCTACCTGAAACTGAGCAAATACCAGTTAAGACCAAAGAAAGTGAAAGTGAAAGAAAGTAAAGTCGCTCAGTCGTGTCCGACTCTTTGCGATCCCATGGACTGTAGTCTACCAGGCTTCTCTGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGTTGTCACTGCCTTCTCCAGGGGATCTTCCTGACCCAGGGATCGAACCCAGGTCTCCTGCATTGCAGGCAGACGCTTTACCCTCTGAACCACTGGGGACCAAAAGTAGACCTCAAAGACTTTGCTTAGGTATGTTTATTTAAAACAGAACCATATGCTTATCCCACAAGCGTTAGAGCTTAAAGAGAACTGTGATGTATATAAGCCACTTCTGAAGATGCTCTGGAAACCACAATTAATGAAGACAGGTAACCCATTAAAGCTGAGCCAAGGAAGCTATTTATATTTATATTGAATATAATTATTGTTTCCATTTCACCTACACAGATTTTACTATTCCAGAACAGCCCATTTGATTATCTGTGTAAAGAATGCTTGCTAATCCAGGAAAAGAACCACAAATTTTAAGGATTTCATCTTCAATCATCTTGTCTCTCTTTTGCCTTGGATGTATCCTCAAGCAGAAGTCCCAAAGAGTATGAATTCTTAAAGAAAAGTCCAGTTTGAACTCATCATCATCCCTTCCCCCTCTTTATTTTGGCTTCTTGTATATCAGAATGTTCTCAGTTTGAGACTTTGGAAATACTGAAACAAGTATCTCTTAAATGGAAAGCTAGATCAGTAGGAGTTAGTGGCTCTCCTGATTGAGGTAAAGAGGAGCACAGACTCAAAAAGGATACACATACCAATCTTCTTTTTTTTTCTTTTTTTTAATCGGAGTATGATTATATGTAGCAATTTAGTCAGCTCTTTTTTGCTTACAAATCCTCTTTCTTCAACTTCCCTCACTTGCTTAGGCTGCGGACTTTCTTCTGCTTGCACTTAAATTTTTCTGGTGATACAATCAGCGTCTCTCTTTCCCGGGGCTCCTACCTAATCCAGTTTACCACGGTATGGTGGTGGCTGCAGTGTCCAAGGGGCCTTGGCCTTGAGATTTCAGTCAAGGTCCATCTAATGGAGTGAAGCAAACAACATTTTTCATTTACCCTGTTCCCTGAGCTGCTGCTGCTTAGAAATTGCCATGCAATTTAAAAATGAAAAATGTTTCATCTCGTGATCCCAGTTTAAAATGGTTAGGAATGTGGGCCAAGTATTTTCCTAGCGACTCTTGGATTTGTCTCAGTTGTCCTCTTATTTGCCTGATATAGGAAAGCCAGGTGGGGGATGTCTCTATTATTCCCCCGTGCCCACCATCTTGCTCCAACCCTATTCTCCTCTCCTCTTTCTCTTCAAAG
Seq C2 exon
ATGGAAAACTATACTCTGCTACAGTGACAGACTTCCTTGCCATTGATGCAGTCATCTACCGGAGTCTTGGAGACAGCCCAACCCTACGGACCGTCAAGCATGATTCAAAGTGGTTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020489:ENSBTAT00000043906:6
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:
PF0140314=Sema=FE(6.9=100)
A:
NA
C2:
PF0140314=Sema=FE(9.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]