DreINT0136742 @ danRer10
Intron Retention
Gene
ENSDARG00000042899 | si:ch211-163l21.8
Description
si:ch211-163l21.8 [Source:ZFIN;Acc:ZDB-GENE-041008-93]
Coordinates
chr8:23782910-23784540:+
Coord C1 exon
chr8:23782910-23783036
Coord A exon
chr8:23783037-23784361
Coord C2 exon
chr8:23784362-23784540
Length
1325 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
AATATGTCTGTGTTTGTTAGAGG
3' ss Score
4.38
Exon sequences
Seq C1 exon
TAACTGCTCAGAGGGCACATGTGACGGCTGCTCTTTCCACTTCCTGTGGCGCTCACAGCAGGCCTGTCCTCTCTGCTCAGAAAGTAACTATAAGGAGATTGTCAGCGCCTGCATCCAGGGAATTCAG
Seq A exon
GTGCAGAAAACATTCAAAAGATTTTTGAAAACATTTTTGTTGCTCTTTATCAATTCGGTTGTTTAGATTTAAATTACAATACATGTATGCTAAAAAAATAGTTTTTTTTTCTCCTGAACTGAACTATAAATCTCCACTTCATCAAGACTTTTACACAATGATTCACAGTTTTATCTGAACAGAGGGATATATTCATCCATAATGTACCTGATCATATACAATTAAAGTCAGAATTATTAGCCCCCCTTTTAATTTTTTTTCTCTTTTTAATATTTCCCAAATTATGTTTAACAGAGCAAGGATTTTTTTACAGTATGTCTGACAATATTTTTTCTTCTAGAGAAAGTCTAATTTGTTTTATTTTGGCTAGAATAAAATGTGTTTTGTTTTTTTAATAACAACAATAATTCAGAGGGGCTAATAAAAAAACAATATGATGAAAATACATAATATCCTGTTATATACATGCCATGTGGTGTCTGGATTAAGCACAAAATGGTGGAAAATGTCAACTGTTTTTCAATTCTGTTAATGATTTAACAATAAGTTGAACAACAAATAGTAACAGAATCAAATGTTACCAATCATATTTAATTTAGCATAATTTTACTTACAAATGGTCATTAGTGCACCCACACGAATCTGTGCGCGCAGAATTTTGCAGATTTTTAGCCCATCATTGATTCTGTTTATTTACTTGTGTTGTGTAAATTTATATTTATTTAGTTTTTAAATTAATTTCAGTAATGTTATTGACTAATATTCACATGGTTTATTTACAATACAATTTGTAAAGTAATATTTTCTGTCTTTTAGTATTATATGAGAGACTTGCTTTGTTTACCAAATTAAGTGGATCTAATTTTATTTGCATTGTAAACATTAAATACGTTTTTTTTCTGTCAAGGTTTTAGTTACGATATTCCTAAAATCATTCCGCATAAATCCACAAATTTTTAACAGAATTTTACAGAGAAATAGCAAACAATGTCCGCAGATACTGTCTGGCACTAGTCATAAAGGGGGTGTGGGTGAGAGCGTTGGGAGAGGAGCGAGGCCGGTGGTTTGAGTGTTAACGAAAGTTAACGCGTGTGACTTGTGCGACACACTAGTTTCGAGTCCTACAGATGGAGCATGGTTGGGTAAAAGTAGAAGTGATGACTTGTTTTGTTTGGTCTTGCTTTAAGTTTGGTTGTAGTCATTTGTAACGCTCTACGTTTTTTTTTTTGTTTGTTTTTTTGAAAGTTTGTCGGTTCTCTTGTTCACCTACAGTGTCCTTCCTTAAGTGAGGAAATAATCACATGAAATATGTCTGTGTTTGTTAG
Seq C2 exon
AGGACGACGTATGTCTGGCAGCAGCCTCTGAGGTGTACAGGCGGTGTGTCTCTGCCTCCTCTGAAGATCAGTACCTGCGTGACGCTCGACTTCTGGCTCAAGTTTGGGGTCTCCATTGGAACTGTGGCCGCCGTGTTGCTCATTACCATCAGCTGCTACTTCTGGAAAAGGACACGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042899:ENSDART00000137820:5
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:
PF053256=DUF730=PD(52.7=90.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAACTGCTCAGAGGGCACATG
R:
TGCGTGTCCTTTTCCAGAAGT
Band lengths:
305-1630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]