BtaINT0141585 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019712 | ST14
Description
suppression of tumorigenicity 14 (colon carcinoma) [Source:HGNC Symbol;Acc:HGNC:11344]
Coordinates
chr29:36961983-36963741:+
Coord C1 exon
chr29:36961983-36962113
Coord A exon
chr29:36962114-36963636
Coord C2 exon
chr29:36963637-36963741
Length
1523 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GGCCTACCCTCTGCCTGCAGCGT
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTACTGCGGAGAGAGGCCGCAGTTTGTCGCCAGCAGCAGGAACAACAAGATCACTGTCCACTTCCACTCGGACCAGTCCTACACCGACACCGGATTCCTGGCGGAGTTCCTGTCCTTCGATGCCCGAGACC
Seq A exon
GTGAGTGTCGCGCTCAGGAAGCGGGGCCTAGCTGGAGGGCCGACCTGAGATTGGCCGTCTATTCTGCATCTCATTAGCATCTCTGACGCTGAGCCGCCAGAGCTCGTAGGCTGCATCTCAGTCACTGCAGTAGCTTTTTGAGGGAAAAAGAGCCAACAGTGCCCTTCGGTCCCTGGGAGCAGCCCCTCAGGCCGGGGAACTCAAAGTGCCTTTGGGTCACTGTCCCTTTGGCTCTGCACCACTTTGAGAATCTGCTTGTCCCTGGCCTTTTAGCGGCTCTCAGATGAATAGCATGCTTTTGAGACAGAGCACACTGGGGCATGGATCATCGCATGAACCACTCCTAGCTCTGAAAATTGAGATCTCTACTGAAGAGATCTCAACTGTTTCCATGCATTTAATTTCACTGTCTGCTGTGAATATCAGTTCTTCTCTGTCCACAGTGGGATATTTTTGTTTGTTTCAACCTTGTATCATAGAATAGGGCTTCCCAGGTGGCTACCAGTGGTCAAGAAACTGCCAATGCAAGAGATAACAGGTTCAATCCCTGGTCTGAGAAGATCCCTTGGAGAAGAAAATGGCAACCCACTGCGATATTTGTGCCTGGGAAATCCCGTGGGAAAAGGAGCCTGGCAGGCTGCAGTCCATGTAGTCGCAGAGTCGAACACAACTTAGCTAGTAAACAATAACACATTATAGAATAACCTTTAGGAAGACACTTTAACTGCACTGCTGCTGCTGCTAAGTCACTTCAGTCGTGTCCAACTCTGTGTGACCCCATAGACGGCAGCCCGCCAGGCTCCCTCCTCTCCGTTCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCGTTTAACTGCACACAAGCATCCAAATTTAAGTTCACATTCAGCTGCATGGCTCACCACCCAAAGTGTAATTAGATGAGCAAACCCTTTTGATAAGTGACAAAGCTACTTGTGCAGAGAAAGGGAAACAGGTTTCTCTCAGTTTGTCATGTGCCCGATGACATCAGTTGTCAGACACATCCTAGTCTCAGAAACGTTCAAGTGTGGAAACACCTTAGAATTAAGGAGATCCAGCGATTCCTGGTGCCTGGGGGAGGACACGCATATCATCTGTCTGCCGAGTGGCTGCTGCTCCAGGTTGCCAGTCGGGAGCCTGGTGCTTGGGGTCATGGCCGGCCAAGGACACGGGGCTGTAGAAATCGGAGCACGCCCGCCGGCCTCTCTCTGCTCTGCACAGGGCCTCCCAGGGATTGGTCATGGGGGCCAGGAGGGACCGCAACCAGTGCCTTTCCCACCCCCTCCAGCCATCCCACTGGTTGTAGGAACCCCTTGCCACAGCTCAGTGGGCCTAGAGACCCCCAGCTGCAGCCTCACTCCTCTCTATTCGGGGCTGGGCTGGGAGGTCTCTGGTGCCCAGTGTGGCTGGCTGCAAGGTCGGGAAGCCTGTAGTGGAGGTGATGGGGGTGGCTGTGGACTTCAGGCCTACCCTCTGCCTGCAG
Seq C2 exon
CGTGCCCGGGCAGTTTCATGTGTAACACGGGGCGGTGTATCCGGAAGGAACTTCGCTGTGACGGCTGGGCCGACTGCACTGACTACAGCGATGAGCTCGACTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019712:ENSBTAT00000026272:18
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:
PF0043115=CUB=PD(34.6=80.0),PF0005713=Ldl_recept_a=PU(2.8=2.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(94.4=94.4),PF0005713=Ldl_recept_a=PU(0.1=0.0)
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:
GGAGAGAGGCCGCAGTTTG
R:
CGCTGTAGTCAGTGCAGTCG
Band lengths:
214-1737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]