BtaINT0004780 @ bosTau6
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MFK0]
Coordinates
chr1:153545193-153547327:-
Coord C1 exon
chr1:153546607-153547327
Coord A exon
chr1:153545290-153546606
Coord C2 exon
chr1:153545193-153545289
Length
1317 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
ACTGTCCACTCTCTCTCTAGGTG
3' ss Score
14.12
Exon sequences
Seq C1 exon
AAAAACAGTGACTTGGGTTATTCTGTTGCAGGACATGAAAACCTTGGCAGAAAAGAAGAACCAGGTCTTACTTATGAAAGTAGAGATGCCTCTCTTCAAGAATATTACATGGATGTGACTTTTCTCATAGATGCTTCCAAAAGAATAGGAAGTGATGAGTTTAAGGAAGTGAAAGCTTTTGTAACCTCAGTGCTTGATTATTTTCATCTGGCCCCAGATCCACTGACCTCCACCTTAGGAGACAGAATAGCAGTCCTGACCTACTCTCCTCCAGGCTATATGCCCAACACAGAAAAATGCCCCGTCTACCTAGAATTTGATTTGGTCACTTATAACAATATACACCAAATGAAACATCATCTCCAAGACTCCCTTCAGCAGCTCAATGGAGATGTTTTTATAGGCCACGCCCTTCAGTGGACACTTGACAATGTCTTTGTAGGAACTCCCAACCTGAGGAGAAACAAAGTTATCTTTGTTATATCCGCTGGTGAAACCAACCCTTTAGACAGGGAAGTCTTAAGAAATGTATCTCTGAGAGCCAAGTGTCAGGGCTACTCCATATTTGTGTTTTCTTTTGGTCCTCTACACAATGACAAGGAATTAGAAGAATTAGCCAGCCACCCACTGGATCATCACTTAGTCCAGCTTGGCCGAACCCACAAGCCAGATTTGAACTATATCATCAAATTTATCAAGCCATTTGTTCATTCAATCAGAC
Seq A exon
GTAAGTCATTAAAGTTTTATTTTCTGTTGCTTTTGCAATAGATATCTCTGTGTACAATCCACCAGTAACATGATTCTCATTTTCGTCAAGAGTGGTGGCGTCTTAGGTGTGAGTAGGAGGCGATGAGAAAACCACAGAGGAAACCCCAGGTCCTAGTGACCTTGAGCTCTGCTGTCTCACTGTCAAGAAACTAATAAGTGTCTTTTAACTCTAACCTGTGAGGGCTGATTATGTGTCAAGTCTTTTAAAGGATTGGATCATTTAATCCTCAGGACGGCCCTCAAAGGAGAGTAGTAATATCCCCATTTTACAAGTGAGAAAACTGAGGTTCAGAGACATTAAATCAGTTGCTCAAACGCTCACAGTTAATAGCAAATTCTAGACTCAATCCTATGCATTCTGACCCCAAAGTTGTGCTCTTGTCCATTAAGCTATACTTTAATTACTAAAGCCTTAATGAAAGTATTACAGTGACATCACTTTAATAAGTAGTACTCCACTCCCACCACCCTCCACCTACTCCAAGGACTTCTGTTTTACCTTGTCACTGTAAGCCAACTTTGGTTCTGGCTTGAATTATTAAGAGCCAGGGGCATGAATCTCTTGTAGAGCCTCTGTCTCAGACAGCTGGCTCAGGCACAGCCAGGCAAGCGGTTTGCGGGTCTCTTTGCATAGTAGGCATTTGAGAGAGGTGTCCCAGTCTCTGTCCATGTGCCATAATTCCAGACATGGTTATAGGAGCAAACCTAAGAGCTGTAGCATCAAGCCAGTCCTGGCCAGTGCCGTGAATTAGGAGTGCAGCAGAGCCACACTCGTAGCTGCTACAAGTTTAGTGGGAAATCACAGGGATACAGATTTTTCTGGTGTTCATAAAGCCCACAGCCCCAGAACCCTCAGAAATCTTGGCACTTAGGATTTATATTTAGTGGCAAGCTTGTCATTTGCAAAAAAAAAAAAAAAAAGCCTTCTTCCAACCTCAAGATAAATAAGGCAGATAATTTCAATAGTTAATGCTGTCTTCCAGAAAGTCCTCCTTTCAGAAGGAGAGAAACAAATGAGAGAAGGGGTTAAGAGTTATCCTTGAATCATACCACAAGCCTGTAACACAGAGAGCATAATTTTTGACTGAATCACTGCTACATCTCGCTGACTTTGCCAATGAGGTATTGCAAAGTCAGAAGGTACATACTTTGCTGAGTCTCTTATAAAATGAATTTGCTCTTGGAAACACCCCCAACTCCAGGAAAAGATGAACTGACTTTGGGTGATAGAATATGGAAGGGTAAAATTTAGACTAACTGTCCACTCTCTCTCTAG
Seq C2 exon
GTGGCATCAACAAATACCCCCCTGCAGACATGAAACCCAAATGTGTTAACATCACCTCTCCCACTCCAGAGAATAATGGCATAGGAAACACTGTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021906:ENSBTAT00000029207:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.348
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=77.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAACTCCCAACCTGAGGAG
R:
CTGGAGTGGGAGAGGTGATGT
Band lengths:
350-1667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development