BtaINT0006206 @ bosTau6
Intron Retention
Description
Membrane cofactor protein [Source:UniProtKB/TrEMBL;Acc:F1MLR1]
Coordinates
chr16:77741103-77741925:-
Coord C1 exon
chr16:77741890-77741925
Coord A exon
chr16:77741360-77741889
Coord C2 exon
chr16:77741103-77741359
Length
530 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TGCTTCCTGTTTTCTTGTAGTTG
3' ss Score
8.83
Exon sequences
Seq C1 exon
ATGCAGGAATCATTGCTCTGGCTATTCTTACTGCAA
Seq A exon
GTAAGTATCTCAAATTTTAATACCACTTAAATAATGATGTAATATGAAGATGAGATGTGCATTTTTTCAATGATTTTCCATTACTATAGTTTTTACAGTAGAATAGTCTAATAATATCTGACCTTTTCTATGATATACTGCCTTATGTTGGTGATTGTATATTGTTTTATATTCTACATATCCTCTTAGTAACAAGCCCTAAATAATACATGTTTTTCCAATTGGTCATGGAAATGACCATGACGATTGGTCATGTGAGTCTATTTCCCAAATATGCTTTGGATAATTTCCTAAATTAAGTAAGGGCTCTAACTTACTGTAGACTGTTCAAGTGATTCCAGGGGGCTGGATTTAGATACTGAAGAATCAAGATGGAATGTAAATGTACACGGGCTTAAATAAAACAGTATTTTCTGATGATAGAAATGGTCAGAAATAAACATAACTAACACTGATTTCTTCTGCTTGGTCTGGAATCTTGGCAGTTAGTTTCCAGAGTCACACGCCATTTGCTTCCTGTTTTCTTGTAG
Seq C2 exon
TTGTTGCTGTTGTAGTAGTTTGCACGTGCCTGTACAGATGTCTTTTCAGTGGGAAGAAGGAAGAGAAGGATATGAAAGAGAAGGTGAAGGAAGTAAAGGAGAAGGAAGTGAGGGATATGAAAGAAGAGGAGAGGGAGAAGGAGGAGAAGCAGAGGAAGGAGGAGAAGGAGAAGGAGGAGAAGAAAGAGAAGGAGAGGAAGGAAAAAGAGAAGGAGAGGAAGGAGAAAGAGAAGGAGAAGAAGCAGAAGGAAAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030910:ENSBTAT00000043743:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.709
Domain overlap (PFAM):
C1:
PF0152811=Herpes_glycop=FE(12.6=100),PF0293211=Neur_chan_memb=FE(12.1=100),PF084965=Peptidase_S49_N=FE(12.1=100),PF041569=IncA=PU(11.3=84.6),PF0334810=Serinc=PU(10.5=76.9),PF074236=DUF1510=PU(9.5=69.2)
A:
NA
C2:
PF0152811=Herpes_glycop=PD(85.3=94.2),PF0293211=Neur_chan_memb=FE(85.9=100),PF084965=Peptidase_S49_N=FE(85.9=100),PF041569=IncA=FE(87.6=100),PF0334810=Serinc=PD(88.4=97.7),PF074236=DUF1510=FE(89.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGAATCATTGCTCTGGCT
R:
CCTTTTCCTTCTGCTTCTTCTCCT
Band lengths:
289-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development