BtaINT0151357 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27128595-27129201:-
Coord C1 exon
chr23:27129045-27129201
Coord A exon
chr23:27128859-27129044
Coord C2 exon
chr23:27128595-27128858
Length
186 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGA
5' ss Score
3.73
3' ss Seq
CCTCTCTCTGACCTGGCTAGTGA
3' ss Score
5.54
Exon sequences
Seq C1 exon
ACAGAGGGGGCGAGCCCCCCATTCACAGCACGGGTGCCCAGCTCTGCCTCAGCCTATGACCAGAGAGGATTAGCCCCTGGTCAGGAGTACCAGGTCACTGTCCGTGCCCTTCGAGGGACTAACTGGGGCCCTCCTGCCTCCAAGACCATCACCACCA
Seq A exon
GTGAGAGCTGGGGCTGTTGCAGGGTGGGGTGTCATGGGTGCAGAATGGATTTGAAAAGGGGGGGCTGGGATATGCCCTCCAAGAGGGCAGAGGGGAGGGACTGGCTGGGGGCAAGGCTCTTAGCAGGACAGCTGGTAACCGAGAACCAGACTCCCACCTGATACCTCCTCTCTCTGACCTGGCTAG
Seq C2 exon
TGATTGACGGCCCCCAGGACCTCCGCGTGGTGGCTGTGACACCAACCACACTGGAGCTCAACTGGCTGCGCCCCCAGGCTGAAGTGGACCGGTTTGTGGTGTCCTACGTCAGTGCTGGCAACCAGAGGGTGCGGCTGGAAGTGCCCTCTGAGGCAGACGGGACGCTGCTGACCGGCCTGATGCCAGGTGTAGAATACGTGGTGACCGTCACTGCCGAGCGGGGCCGGGCAGTAAGCTACCCAGCTTCCATCAGGGCCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444:ENSBTAT00000001893:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.528 A=NA C2=0.191
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(54.2=84.9)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCGAGGGACTAACTGGGG
R:
CACCACGTATTCTACACCTGGC
Band lengths:
253-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]