DreINT0033255 @ danRer10
Intron Retention
Gene
ENSDARG00000035719 | arl5c
Description
ADP-ribosylation factor-like 5C [Source:ZFIN;Acc:ZDB-GENE-040426-1866]
Coordinates
chr3:15987242-15988953:-
Coord C1 exon
chr3:15988870-15988953
Coord A exon
chr3:15987394-15988869
Coord C2 exon
chr3:15987242-15987393
Length
1476 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGGT
5' ss Score
6.36
3' ss Seq
AATCTCATCTCTCCACTCAGGAT
3' ss Score
8
Exon sequences
Seq C1 exon
ATTATCATCCTGGTGGTTGACAGCACTGATCGAGAACGCCTGACTGTAACTAAAGAGGAGCTTCATCGCATGCTGGCACACGAG
Seq A exon
GTTGGTTTGTTTTGCATTCACCTGCTTTATGATGCTCTTGTCATGAATGTTTCATGATGGGCATCTCGTGCACTTTGCTGGTTATTTTAGTATCACAGAGTAGTCGTTGAAGCTTTTGTTTATAGTTGAATTGTTTTTAGAATTTCATATGTTTTCTTTTAAATTTTGGATTAAGATTCACCCCCCCCCCCTTTTTTTTTTTTTTTGTTAACATTTCTTAACACAATAGTTTTAATAACTAATTTCTAATAACTGATTTAATTTATCTGTGCCATGATGACAGTAAATAATATTTGACTAGATATTTTTCAATACACTTTTATACAGCTCAAAGTGACATTTAAAGGCTTACTAGGTTAATTAAGTTAATTAGGTAGGTTAGGGTAATTTGGCAAGTTATTGTATAATGATGGTTTGTTCTGTAGACTATCGGGAAAAATATATAGCTTAAACGGGCTAAAGATTTTAACCTTAAATGGGGTTTAAAAAAATAAAAACTTATTTTATTCTAGCCAAAATAAAACAAACACGACTTTCCCCTGAAGAAAAAAATATTATCAGAAATATTTTATATTATATATAAATATATTTCCTGAATCTGTTAAACATCATATGGGAAATATTTAAAAAAGAAAAAGAAATTTAAAAAGGGGCTAATAATTCTGATATCTGTAAACCTACCTTTACCTTTATTAAATACATAAGATATTCTACTTCTACCATTTTGTGTATGACTGTGAAGACCTTTTATACGGAGTTAGTTTGATTATTTATATAAATATATATATATATATATATTGAATAAGCTTTTTGTTTAATATGTTTAGTTTTTGTTTCGATTATAAAGATATACTTTAGTTTAGGTTGAATTTGTTTTAGTAATTTCTCTTTAAATCAGTTTTAAATATTGCATGTTTATGTTTTATTAAACATTATATTTTTTTGTATATTAAAGATATATAATGTTTAATAAATATTACACTTTATTAATTTCTTGTAGTTGGCCAACCTTAATAGTTTAAATTAAAAAATGTTTTGGTAATTATAACCTCTTTAACCCTGGTTCAAAATAATGTCTCTATTTAGAAACAATAAATGATACATTTGAGCAAAAAGCTACTGTTGTCTATTTGCTTATAAATGATTAACATACCCCAAAAAGTAAAAAAAGAAATAAAATTAAAGTATATGAAATCAGTAAACATTGCACACATATTTTATTTCTGAATCAACACAATTTCATCGCACAATTATAACTCAATTCAGCAAAATGTTCGATATATTACACAAAAAATATGTTAACACTCAGTATGAGTATGATAGTCCCTAATTTGTTTAAACATTGGGTTTGCAAACAAATGATTAAATCAAGGTTGGGTTGGACTAACCCAAGAGGGACCAGCCCTTGTCCTAATTGTTTTCAGCATAATTATAATTTTTTTTATACTGACTGTTGAATCTCATCTCTCCACTCAG
Seq C2 exon
GATCTCCAGAATGCATCAGTGCTGGTTTTGGCAAATAAACAGGACATGGAGGACAGTATGACTGCAGCAGAAATCTCTCAGAGTCTAACCCTCAGTTCACTCACCGCTCGATCCTGGCATGTGCAGGCCTGCTGCGCGCTCACCGGGGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035719:ENSDART00000016616:4
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:
PF128032=G-7-MTase=FE(18.0=100),PF0002516=Arf=FE(15.6=100)
A:
NA
C2:
PF128032=G-7-MTase=PD(26.0=76.5),PF0002516=Arf=FE(28.9=100)
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:
TTATCATCCTGGTGGTTGACAGC
R:
CAGGCCTGCACATGCCAG
Band lengths:
214-1690
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]