DreINT0132133 @ danRer10
Intron Retention
Gene
ENSDARG00000099554 | sec16b
Description
SEC16 homolog B (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050208-274]
Coordinates
chr6:23819465-23820746:-
Coord C1 exon
chr6:23820685-23820746
Coord A exon
chr6:23819604-23820684
Coord C2 exon
chr6:23819465-23819603
Length
1081 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TTTTCTTCTCTTTTGTATAGGGA
3' ss Score
9.7
Exon sequences
Seq C1 exon
GTAATTCTCTGTGACACACATGCACAACACGATATGAGAGACTTTCCTGGACCTCTGGCAAG
Seq A exon
GTATGAAGGTTCAAAATATTATTGTTATTGAAAAAATAAATCAGTAAATAAACTTAGATTCATTTATATGTATTTTATTTAATTAATCATTAACTCCTATAGTGTGCAACAAAGCGTATAAAGTTTCTGTTAGCATGTAATTTGTTAAAAAAAAATTCCCACAATTAATTTACTCATAATCCCATATTTAAATCCCTTAGATGTGTGAGTTTGTGTGTGTTTGTGTGTGTGTTAGAGAGCTACAAGTCATAAAATAAACATGCAGTACTAGCTACAATGCCAACCACACCATTGGAAACCATGGAAACTCACACTGGTTTCTCACACGTTATATTTGACCAAAGTAATATAACAGCAAACAAAAGATTTTTGTTCTGCAAAGATGCTTCTGTTTGTGTTTAAAGTCCATATGAACTGTAAGCTGCGACCACTTTTTTTCCAAATTGTGATTCAGTTATACAGAAATGGATTATTGAATTAAAAAACAGTGGCCATGGCTTGTTTTTTTTCTACTGCGAGCTGAATGGATGCTGTTAAGTAGGCATTTTATTAAGAAAGATTGGAAAATAGTTTTAGAAGAGTTATTACAACCTAACAGACACCGGCTAATCATCATTTCTGTTTGTTGTCAAAACTGACAGTTAAAGGGGCGTGGATAAGTATGTTAACCACACCCAATTCCTAAACATATGTAATCTGACAATTTAAGTAAATAAATAAATAAATAAAAAAACAGGAAGAGGATTTTCAGATTTCACATGAAAAATACAAAGGCAAACATTTTTAATTCTTAATGACATGCAAAGATTATGTGAGCTAACAAAATCATATGGCTATTGATTTCATTTGAACTTGAAGCTCAGTTTATGGAGTTTTAACTTTTTTTTTATTTTCAGAAGAAAACATTTCATAGTTAGGTTTATTTTCTTGCTAAATAATCCTGCTACATATTCTTATATTTAAATTAATTTGTCCCTGGCTGTCTGTATTTGGTTATAGGGTGTGTTTGTTACTCTGTGTGTAGTAAAAACAGAATCTACTTGACTAAACTGCAGCTGCGTTTTTCTTCTCTTTTGTATAG
Seq C2 exon
GGAGGATTTGCATAAAGTGGATGCCATTAACTTTGCCATTCAAATGTCAGAGATGTGTCTAAAGGATGAGAAATTAGAAGACCACACATCTGCTGCCCTCTTGTGGCATTTCCTAATACTGCTGTGCAGACAGAATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099554:ENSDART00000160547:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129322=Sec16=FE(19.4=100)
A:
NA
C2:
PF129322=Sec16=FE(44.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAATTCTCTGTGACACACATGCAC
R:
TGCACAGCAGTATTAGGAAATGC
Band lengths:
190-1271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]