DreINT0136678 @ danRer10
Intron Retention
Gene
ENSDARG00000092989 | si:ch211-161n3.3
Description
si:ch211-161n3.3 [Source:ZFIN;Acc:ZDB-GENE-041210-102]
Coordinates
chr4:10964276-10965289:-
Coord C1 exon
chr4:10964993-10965289
Coord A exon
chr4:10964591-10964992
Coord C2 exon
chr4:10964276-10964590
Length
402 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
GTCTGATGTGTGTGTTTCAGCTC
3' ss Score
9.66
Exon sequences
Seq C1 exon
AGTATAAAGAGATCAGGTTAACTGAGGGCTGTGAAGGGAATGTGGAGGTTTTCTACAATGGATCCTGGGGAAATGTGTGCTGGAATCAGATGGACAGAGACACAGCGAGTCTGATCTGTCAAGAGCTGAACTGTGGAAGATCTAGCAATGAGCCCAGTCATTCAGAGGGACTGAAGTCTCATAATTGGCTTGATTATTTTAAATGTCGACCACATGACTTTACTTTATGGCAGTGTCCATCTGCACCCTGGAGACTGACTGACAGTAATAATGAGGTGGCTGTGATCACCTGCACAG
Seq A exon
GCAAGTTCATTCTGAGTTAAGTTTAAATAAGGTGGATATTTTTGTTTAAAGTGTTATTACGGCTTCAAACAACTTCCAATTTTCAGTTAAGTGTTGAAATTTTAACATGTTTTAATCTCAGAGGAGGAAAGTTCTGAGTCTCCTAGGAGTCTTCTTCCCTGTTTTACTTATTCATCTCATCACCAGAGGCAGTGTTCAAGTAAGTTTATTACAGTACATGTCATTTTTATGTCATCTTAAACAGTGGACTGACATCTTAAATGATTCAATGTCATAATCAATGATATAATAAAATTCAAATAATGTTTAAATTAATTACAATTTTACAACTTGTAATTTCAGTCTGTGTTTTGCTGTAAACTTGCTACAGCAGTTCATCAATGTCTGATGTGTGTGTTTCAG
Seq C2 exon
CTCACGTTCCTCTCAGACTGCGTGGAGGGGGCGGCCGGTGCTCTGGAAGGCTGGAGGTGTATCATAACGCTGTGTGGGGCTCAGTCTGTGATGATCTCTGGGACATCAGCGATGCTCAGGTGGTCTGCAGGCAGCTGGGTTGTGGAGCAGCACTGAGGGCTGATGGGAATTCAGCCTTTGGTGCTGGTGAAGGTGTTGTGTGGCTGAACAGAGTCCAGTGCAGAGGGAATGAGCTTCACCTGTGGGACTGTCCTCTCTCCCTGAACAACCACACTGACTGCTCCCACAAAGAGCACGCTGGACTCACCTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000092989:ENSDART00000136440:13
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:
PF0053013=SRCR=WD(100=93.0)
A:
NA
C2:
PF0053013=SRCR=WD(100=92.5),PF151021=TMEM154=PU(11.2=15.1),PF0110213=Glycophorin_A=PU(9.8=10.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCCAGTCATTCAGAGGGA
R:
TCAGCCACACAACACCTTCAC
Band lengths:
355-757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]