BtaINT0129779 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9164317-9166228:+
Coord C1 exon
chr23:9164317-9164396
Coord A exon
chr23:9164397-9166078
Coord C2 exon
chr23:9166079-9166228
Length
1682 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
CCACTTGCCATCCTCTGCAGGAC
3' ss Score
9.75
Exon sequences
Seq C1 exon
AGGACTACGAGCAGCTGGTAGAAGACATTGTTCGAGATGGCCGGCTCTATGCATCTGAAAACCACCAGGAAATTTTAAAG
Seq A exon
GCAAGTGAATATTAACAATAATGACAGCCAGTGTTTAATGAGCATGTAACAATGGGCAGGCAATATGCTAAGTGCTTACTTGAATATTCTCTTTGATATACACAACAGGCCTATGGAGTAGGTACTTTCATCATTCCTAACAAAAAGCCTTTCATCTTTACCGATGAGAAAGCTCAGGCACAGAGAATTATAGACCGCGCCCCAGGGGTAAAGCTGGAATTTGAGCCCAGACCCATCTGACTGCAGCGTCAGCCATACTATCTTACACTCTGGGGGAAGAGAACAGGAAGATGAGATGAAATGTCCTCTGCCTCTTCCACCAAGAAATATATGGAAAATAAGGTTTAGAAAGATGCTTTTGGGATTTCCCTGGCAGGGAGCTCCCTCCTCAGTTCCCAGAGAAAAACAGTGCTCCTGTACAGCGTTTCTCAGGGTTAATTCAGTAGAGACCTCTTTTAAAGGAAAAGAAATGTTTCCAACATTGAAGGGTGGTCTGGATACTCAGGTCCATGGATCCCAGTTTGAGAATGTCTTACTGAAGAAACTATAGTCCTAGTCACAGTATTATCCTTCATAAACTATCAATGCAAAAAATGTTATTTTATGATAAATAAAATAATTTTTTATTATTAAAATGAGACACAATGACAAAAATCTCCTAGAACTGGTTGACTGCAAAGAATATCGCAGCAATGCTTCTCAAAAAACTTCAGAGCATCTGAATCCTTATTTCAAATGTGCTGTGAACTCCAATGCATAAAGTTGAGGTACCATTTTGATTAAAGTGGAGATGAGAGGCTGGAAGCTCCACCTCCTGTTTTAAAAAATCTCCTGATGCAATGTGAAGAACACTAGCCCAAAAGCCGGAAGAGCTGAGTCCTAATGCACAGTGCTTGGCACCCAGTAGGCTCTCCACACATCATACTGCTGTTTCAGACAGGTGGTCAGGAAAGGCCTCTGAGAAGAGACCTGAATGAGGTAAAAGGCTACCTATTAGAAGATCAAGAGAGGATCATTCCAAACTCAGGAGCATGGGAGTCATACAGCATGTTCAAGAACCTTGAGGCCAGTGTGGCTCAGCAAAGCAAGGAAGAATCAAGGGGGGATACGGGAAAGACAACGGGGCACAGATCACATCCCATCGATGGGGCATGCCAGGGATTCAGCTTTGCTGAGTCATAAAGAACCCAGAGAAGTTTTTAGAATAGAAAAAGGACATGATCTAATTAAAAAACAAAAGTCATTCTGCTGCTCCTGGGGATAGGGAGGGAGAACAGTCTATAGAAGGACAAAAGTAGGTGGCAGTATGGCAACCAGGTAGGAGGCCATTGCCAAATGAAATGATGGTCTTGGACAGGGTGGTAGCTGTGGAGACAGTGAGAAGTGGTCGGACCCCGGATATATATTTTAAAGGTAGAATCAACAGGTTTTGCTGTGGTTGTGAGTGAGAGAGAGGAGTCAAGGATGGCTCCAAAGACTGAGACTAAGCAATGGAAAGATGGAGCTGCCACTGACTTGAGTTGTAGAATTCTAAGGAGCAACAGATGGTGGGAGGGGATCCATAGTTCACTTTTGGATGTGCCTATTAGGCATCAAGAGGGACTGCTGCTGGGTGGAGGCCAGTGGTCCTCTTTCCCACCACTGACATTGATGCTGATATTGCCACTTGCCATCCTCTGCAG
Seq C2 exon
GACAAGAAGCTCATTAAGGCCTTCTTCGAGGTGTTGGCCCACCCCCAGAACTACTTCAAGTACACAGAAAAGCACAAGGAGATGCTGCCAAAATCCTTCATCAAGCTGCTCCGCTCCAAAGTTTCCAGCTTCCTAAGGCCCTACAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGACTACGAGCAGCTGGTAG
R:
CTATTTGTAGGGCCTTAGGAAGCTG
Band lengths:
230-1912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]