DreINT0136939 @ danRer10
Intron Retention
Gene
ENSDARG00000035821 | si:ch211-173p18.3
Description
si:ch211-173p18.3 [Source:ZFIN;Acc:ZDB-GENE-060503-672]
Coordinates
chr19:40567998-40569769:+
Coord C1 exon
chr19:40567998-40568339
Coord A exon
chr19:40568340-40569674
Coord C2 exon
chr19:40569675-40569769
Length
1335 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAA
5' ss Score
3.23
3' ss Seq
TGGTCCCTTTCACACCTCAGAGA
3' ss Score
5.64
Exon sequences
Seq C1 exon
ATCAGACTGATAACATTATGGAGGATCTCGATTTGCAAGATCTGTCTAGTAATCTGAGCTGGGAGGAGGATCCTGTGTCTCCTGCTCAAATTTTGGATCAAACCCCAGAACCTGAACCACCACCACCACCACCTCCTCCTGCTCCTGCTTCTACTCCTACTCCTACTTTTGCTCCTGCTTCTACTCCTACTTTTGCTCCTGCTTCTACTCCTACTCCTACTTTTGCTCCTGTTTCTACTCCTACTTTTGCTCCTGCTCCATCATCCAGATCTGCCACAATGACACTCGTCTCCACCAAAGCAGGGGAGCCACTGATGGACTTGGAGGCGGATTTCCCAATTG
Seq A exon
GTAAAATTTCTGTTGGAGTTAATAAGAGTTAACAAACACTAGGGATGAACCGATATCACTTTTTTCAAGCTGATATGAGTACTAGTGTTTTAATTTGTGTACTCTCCGATACAGAGTACCGATTCCGATACTACTTAGACTTGGTTTCTTGGTTGATTTGAAAGGAGGTTTTATGTTTGCCAGTAGCAGGAATGAACACAAATCTTTAACAGAAGGCTATTCCAAGCCAGAAATATACACGCATTGTTGATAATCCTGTAAATTGATAGCCCGTTTAAGCATGGATGTTTTAAGGATAGTTTATTTTTTCACTGACGTATCCACACCTTTACACATTACATAATCAAGTGTGTGCAGTTTACGTTACATTGTGAACTCACTCTTGACATTGCATATTGGTGACGTGTAACCCTGCCGGCCCTGCACCACCCAACGCGCTGAGAGCTGGGATTGAACCGGCAACCTTCTGCATGGGAGTCCATTGCTCTTACGGCAGACCATGGCCTCTAGCGCCTGCCGCTAGCGTGCCTTTAGAGGTCAGAGGAGTGAGGGTTACCCGCACAGTACTTTACTAGCTGGCCTCCGTTACACTCACCTCCCTAAACCTCACTCCAATCCAGGTGACGGCACCAACGTAACCCCGTCGGTCCTATACCACCCGTTTAGAGCTGGGATCGAACCAGTGACCTTCCACATGGGAGTCTGTTGCTTTATCAAAGAGACTAAAGACCATGGTGTTTGTCACTAGAGCACCTTTAGAGGTCAGAGGAGTGATGTTTACCTGCACAGCACTTCACTAGCTGGCCTCCGTTACACTCACCTCGCTCCTATCCGGGTCACGGCACCAACCTTCCAACCGAGTTTGTTCTTCCGAGGTAATCTGGTAATGCTTTCAGTGTTGCGAATAGGGGATTGAACAGGCGCAGTGGATAATTTGTTTTTGTCATTAACAGTTTAACATGGACTTCTCTGAAATTATTAATACTTCACTTTATATTTATACTATAATTTTATTTAACAAACCAGTTTGTGTTTTGGCTCTGAAGCATATAACGGACTGGTTTTGAAGCACTTCACCTCTGTTATTGGTTGTTCTTGTTTATTTCGTAGATAACTGACCAACTAAACATATATTAAAATTAAGGTAAACATTATACCAAACAAAATGAGTGAATATGAAGTGTATTGTGGTATCGGCATTTCATATACGATACGAGTATTTTAACGAAGTATCGACCCGATACTGGTATCGGTGCATCCCTAACAAACGCAATCAGAGCTGGTTACGATCCTCCATTTAAACTTGATGTATATGTGGTCCCTTTCACACCTCAG
Seq C2 exon
AGACCATTGCGCTTCTCAGAGAGCAAATGGAAAATGATTCTGGAAAACGGAGATCTTGCAAGAAAGGACCTGATGTCTCAACTCAGAAGAAACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035821:ENSDART00000143966:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.957 A=NA C2=0.938
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGGATCCTGTGTCTCCTGCTC
R:
GTCCTTTCTTGCAAGATCTCCGT
Band lengths:
345-1680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]