BtaINT0159747 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107165911-107169192:+
Coord C1 exon
chr2:107165911-107166051
Coord A exon
chr2:107166052-107168985
Coord C2 exon
chr2:107168986-107169192
Length
2934 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TGGTCCCTCTCCTCTTCCAGGAG
3' ss Score
11.31
Exon sequences
Seq C1 exon
GAGCTCACAAGCTCTAAACCGGAGGCGTTCAATGCTAACAGCAACCTCAGTTCTGGACCTCTACCCATCTTTCCCCTGGAGCAGCTGGTGAACAAGCCCACAGAGGAGCTTCCTGAGGGCGTGGATCCCAGCCGAAGGGAG
Seq A exon
GTGGGTCAGGGCCTGATTTAGCCAGAGATTTTTTCTTGAAAGATGAATGGGAATTATTCAGGCAGAGTGGGATATTCTTGGAGAAGGGAACAGTATACATGGAAGCCCAGAAGTAGGATGTAAACACAGCTTGGGTGAAAGGGCAAGATGGCCAGAGCAAGGGGTGGGTGGAGCTGGGAAGGGGCAGCTGCTGGGTGGAGGGGGGCACTGGGCAGCACCTTTTTTGTCAGGCTGGGGAGGGTGGTGTCCACCCTAAAAGTCAAGGGGAACTATTATGGGTGAAGCAAGGGAATGGCCGTCAGGTTTACATTTTTCAAAGCCCACTCTAGTTGCTCAGTGAAGAATGGACTTGCTAAGTCTCCTTTAGTCGTGTCCGACTCTTTGTGACCCTATGGACTGTAGCCCGCCAGGCTCCTCTGTTCATGGGATTTTCCAGGCAAGAATACTGGAGTGGGTTGCCATGCCCTCCTCCAGGGGATCTTCCCGACCCAGGGATTGAACCTATGTCTCTTATACCTCCTGCACTGGCAGGCAGGTTTTTTTCCACTAGCCCCATCTGGGAAGCCCAAGAATGGGTGGGGATGGGTGGAGATGGTTTCGAGAAGTATTTAGGTTAAATCAGCAACACTTGGTAATGACTGGATAAATGTCATGAGAAGGGGGGTAATTGTGTCATTTTCTGAGATTGAAAAAAACCCTGGGTCAGACCCAGCTTAAGACAGGGCCAATCATGAGTTTAGTGGCACCGGGGAGACATCCAGGTTGGAATATCACTATGTGTATGGTAGGCTGGCAATTCAGAGGCGTGCCGGGGAGGAGACGAGTCAGCACAGGGTCCCTCAGGGAGAGCAGCTGCTGTCTGTGTGGTTTTGGGGGAGAGAGTTTGGCAAGAAGGGCATGTTTTAAAAAACACATTTCTAATATTCATTCTCTGTTCATGAAGATCCAAAATAGACTGCAAATCTAGCTTGAGAGGGTATTGAGAGAAAATTTCCCCAGTGTTACAATAAACCATAAAGAAGCCTCAGAAATGAATTAAGGAACCTATAGATGGGAGTTGGCTATTTCCTCCAGGAACATCTGTTATGGGTTTGGGCCCAATATACACATAAGTGTATTGTTTCTAGAACATTTGCATCCTCCTTGTCACCTTTAGACCCCTTTATGCATTACCTGTGTCTTCACTGTAATATTGGGATGATCCTAATAGCATATATTATTCTTAAAAATATTACAAATACTATTTCCCCAGCCTTGGTCCACAGGAAGTGTTCTGTATGTGTAAGCTGTGATTGTCATTGCTTGTTTTACACCTCAGAAAACTCAGATCCAGAGCAGGGAAGTGACTTTCCCAGTTAGTAGCCGAGTCAGAGCAAGAATCAGGTCTTCTGAGTCCCACTCTTCCTGTCATACCACGTAACACACAGAAAGTATTTCTAAAGGGAAGGGTAGCCAGTATTATTGGGCCAGGTGATTTAAAGGAGGCTAAATAATGACCATGTACTTTGTTGGTGAGGCTGTGGAACAACATATATTATTTTGCTGTGAGGGCAGAATGTTACTACCCCTGTAGAGGGGAATTTTGCAATATCTAATAAAATATACATTAGCCTTTTTAAAAAAAAGGTAAATAGATCACCAATTTTGAATATAAGAAACAGAGTCAAGACAACTCCACCATGGTAGAAGAGGTCTGAAAGGCTTCAGTTCAGTTGCTCAGTCTTGTCCAACTCTTTGTAACCCCATGGATCACAGCACGGCAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCCGGAGTTTACCCAAACTCATGTCCATCGAGTCAATGATGCCATGCAACCATCTCATCCTCTGTGGTCCCCTTCTCCTTTTGCCCCCAATCCCTCCCAGCATCAGGGTCTTTTCCAATGAGTCAACTCTTTGCATGAGGTGGCCAAAGTATTGGAGTTTCAGCTTCAGCATCAGTCCTTCCAATGAACATCCAGGACTGATCTCCTTTAGGATGGACTGAAAGGCTTAGATTCTTTTAAAAATTTTGTTGTCACCGATGATTAAATTGTGGGAGTAGTGTGCATTCTTATAGAAAAATTGAGGGTTCCAGGCTAAGTTGGGAGAGTGCACACACTCTCTGGCTGCTCCAAACTCAGAAGGGAGGGCCAGTAACAGTGAACAGTGGGCTGGTGGGTCTCGCTGCAGGCAGTAGCAAGAAGGGCAATCCGAGTACCCATGAGTAAACCACAGAGAGGCGGATGTGGGCATGGGTGAGGCTAGTAATCAGCTGGCAGGACCGCAGGGTTCAACAACAGGACCAGTGGAAAGATACAAGTCCACTGGGATGGGCAGTCCCTGCTATCTTGCCTGGGGGGTCAGAGTCCAGAAGTCTCAACCAAGCTGCAAAGCCAGCTTGGGTGGGACAGAGGGCACCTAAAGCATTTGCAGACCATGGACACAACCATAGCTGTCAGGGACCTTCTTCCAAAACAAAGTGCTCCACCACCCTGCCTGGGGGATTGGGGAGCTCAAGGCTCCAGGAGCCTTGAGCAGAAAATGCCGAGGTGGGAGGCAAAGGATAACAGGTTAGAAAACTGGAGCTTCAGATCCACCTGAGTTTGAACTTCATCTAAAGGTGTTTACTAAGAAGCTGTTCCGTGCAACCTGGGCTTGAACTCCACCTACAGGTGTTAACCGTAAAGCAGCTGTTCAATTCAGGGCTCTCTGCAGGAGTCAAAGAAACTTTCTCCAGGGCAATCCTACAGAGCAGAACAGCCCCAGATTGAAAAGAAATGCCACCTCCCCCCTCCCTGTCCCTTTCCTGACCCTCACCACATTGCCTCTTTTTGCTCGTCATCTGATTTCTATGCTACACTTTTGTGACTCATCAGAGCTAACTCTAAGCAAGGAGCTGACCCTCTGGTCCCTCTCCTCTTCCAG
Seq C2 exon
GAGCACCTGTCCATTGAGGATTTCACCCGGGCCTTGGGGATGACTCCTTCTGCCTTCTGGGCTCTGCCTCGATGGAAGCAACAAAACCTCAAGAAAGAAAAAGGACTGTTTTGAGAAGCAAAAGTAGCTTGTAGTTTAAAGTAGTACCCTACCCTGCTTGCAGAGCTTCATTATTAATGGTATCAGTAAATTGAAGTGAATCAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.511 A=NA C2=0.054
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220914=VHP=WD(100=94.7)
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]