DreINT0156699 @ danRer10
Intron Retention
Gene
ENSDARG00000076484 | stab1
Description
stabilin 1 [Source:ZFIN;Acc:ZDB-GENE-050208-554]
Coordinates
chr22:10288040-10288920:-
Coord C1 exon
chr22:10288807-10288920
Coord A exon
chr22:10288236-10288806
Coord C2 exon
chr22:10288040-10288235
Length
571 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
TATAATAACTCTTCTCCCAGGAC
3' ss Score
7.46
Exon sequences
Seq C1 exon
ACACAGCCAAAGTTCCCTCAAAATATGAAGAGTAACTGTAAATACAGGACAAGAGTTGGAAAAAAGAGAAAGACTGTGTCAGGCTGTCTCATGGACTGTTTGAGAACAACAAAG
Seq A exon
GTATTTCACCCAAATCTTAAGGACCCAAACTCATTGTCCAATGCTTTGAAGAGCCACGGTCTTGTTAATCATACTTGAGATGAAGGGTGCATGGTAATTGGTGCATTTCAAAGGGTTGGTTCACCCAAAAATGGCCCACAGGGAAAAACCTAAGGCATAAGATCTCCGCCACCACTGGGGCATCTACCCAGAAAGGGAGGTGTTTAATGTGAAAAACGGTGCTGGATAGGGATGATGCTCCATCGGCCTAAAGCATCGTTAGAGGGGAACTGTTTGAAGTTACAGTAGTTTGCCTCAATGACCTCGTCCAGACCTGATCACGAGAAACCTGCATTTAATGAAGACTTCTTTTCCTGATTTAGATTACTCTCTGGATTAATTTTAAAATCCCTAGTCATATTTATCTTTTTTTGCCATAAAAATTGGAACTTTGTATGATAACAAAATGATTACTAGGCCTAAAACTCTGTAGTTAAAATGTGTCACTGATGTAGTGCTGGTTGGGTTTACACATCTTAATTCAAATTTGAATCTGATCCAAATTGAAACCTTATAATAACTCTTCTCCCAG
Seq C2 exon
GACCACTCCTGCTGTCCAGGATACTTTGGGCATGATTGTGGAAAATGCCCGGGGACTTTGGATAACTGGTGCTCCAACAACGGTCAATGCGAGGACGGGCTGCACGGCACTGGCAAATGTCTCTGTAATGAAGGCTTTCATGGAACGGCCTGTGAGATGTGTGAACCCGGGAGATACGGAAAAGACTGCAAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076484:ENSDART00000092050:37
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:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=45.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACAGCCAAAGTTCCCTCAA
R:
GCAGTCTTTTCCGTATCTCCCG
Band lengths:
303-874
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]