DreINT0162557 @ danRer10
Intron Retention
Gene
ENSDARG00000099979 | tgfbr3
Description
transforming growth factor, beta receptor III [Source:ZFIN;Acc:ZDB-GENE-120215-125]
Coordinates
chr6:24464834-24465587:+
Coord C1 exon
chr6:24464834-24464986
Coord A exon
chr6:24464987-24465404
Coord C2 exon
chr6:24465405-24465587
Length
418 bp
Sequences
Splice sites
5' ss Seq
TTGGTATCT
5' ss Score
0.67
3' ss Seq
TTCTCTATCTCTGATTTCAGTTC
3' ss Score
8.53
Exon sequences
Seq C1 exon
ATTGTTATTAGCCAATCAGAGCAGAAAGATGGAAGTGGCTGGCCTGTTGATGATGAAGATATGGAGCCTGGAGAAGTTTTATTACCTGGAGATGCATTACCGGAGCTCACAGAACGAATTTTACCAGTAAACGGACATCATGCGACTATTTTG
Seq A exon
GTATCTACTGCCACTTTTTTGTCAAAAAATTCATTGGTTTTCAGGGAACAAAGTAGAATTACAATAGTTAATTGGAGAAAAAAAATAATAAAAATTAAAAACAAATAAATAAATAAAATAATATCAAACAACAACAATAATAATAATAATAATAATAATAATAATAATAAAAATACTGATTATAATAAAAGTTTTTCTTAAAAATATTACATTTAACTGTTGAAATGGGATTTGTTACATTATTTAGATACCACCACAGTACATTTTAATATGCATATTGTTGTAATTTGAAAAGTACATAATAAGATAACCATAGCAGGCATTGTATATTTCCCACCTTGACAGTTCTGTTTAGACCTGTCACTTACATTGAAGATGCATGTTCATGTTTTCAAATTTTCTCTATCTCTGATTTCAG
Seq C2 exon
TTCAACTGCACCTACCGCAAGAACCAGGACAGTCCATTTGACACCGATGCTGGATCTGATGATTTTCTTGTAGACTCTACAGCCAATGTAACCTTCAACATGGAGCTTTATAACAACCACTTCCAGTTCCCCAACAGCCAGCCGTTTCTCACAGTCACTGAGAACAGACCTGTCTTTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099979:ENSDART00000167482:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.451 A=NA C2=0.089
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(18.2=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTATTAGCCAATCAGAGCAGA
R:
CTCCACAAAGACAGGTCTGTTCT
Band lengths:
334-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]