DreINT0057756 @ danRer10
Intron Retention
Gene
ENSDARG00000013125 | dlx1a
Description
distal-less homeobox 1a [Source:ZFIN;Acc:ZDB-GENE-990415-48]
Coordinates
chr9:3417266-3418577:+
Coord C1 exon
chr9:3417266-3417465
Coord A exon
chr9:3417466-3418013
Coord C2 exon
chr9:3418014-3418577
Length
548 bp
Sequences
Splice sites
5' ss Seq
CAGGCATGT
5' ss Score
2.05
3' ss Seq
ACTCGTTTTTCCTTTTCCAGGTG
3' ss Score
12.77
Exon sequences
Seq C1 exon
CACCGGAGTCAGAGAAAAACACCGTGGTGGAAGGAGGAGAGGTTCGTTTCAACGGGAAAGGCAAAAAGATCCGCAAGCCCCGGACCATATACTCCAGTCTCCAGCTGCAGGCTCTGAACAGGCGGTTCCAGCAAACCCAGTATCTGGCTCTGCCAGAGAGAGCCGAGCTCGCCGCATCACTGGGGCTCACGCAAACACAG
Seq A exon
GCATGTGCTCAGCTTTTACTCGTTTTCAGGGAAGCAATAGAGGCTACATACATGTCGCTTTTACAATTTAAGAAATATTGGGTATTTTTATATTGGCATTCTCTTTTTGAAGTGTAGGCTAGTGCACTTTTTCTCTCTATAAAGGCCTGCTGTCAAGGGTATTATTTGTTGGTCACACTTTACTATAAGGTTTCATTGAGAGTAACGTATTTACTAACATGAACTAATAATGAACTACATGTACTAAATTTATTATCCATAGTTCAACACTTACTAATGCATTATTAAAATGACAAACTCATGCTTGTTAATATTAGTTAATACATCATAACAAGAAACCAACAACGAACAACTTTATTGCCAGTTATAAACTTGAATAAACACTGTATTTAATGTATTATTTATTGTTTGTTTAGTACATACTAACACTGACTATTGTGAATTGTTACCCATTTGTCTGAGAGAACGCAGAAGTAAGTGAACGATGCTTTATTCAACGTGAATCAGATATCGTCTCTCATTCTCTGAACTCGTTTTTCCTTTTCCAG
Seq C2 exon
GTGAAGATCTGGTTTCAGAACAAACGCTCCAAGTTTAAGAAACTGATGAAGCAGGGTGGAGGAACAATAGACACGAACGCTTTGGCTAACGGGCGCGGACTGTCCACCGGATCTCCATCCGTGGCGCCCGTCTGGAACACAACAGCCACCGTCAAAACGTCCACACCGACCTCTTATATTCCCAGTTACACCTCATGGTATCCCACAGCACACCAGGACACTATGCAGCAGCCACAGCTCATGTGAACCAGGACTGCTGAAACAACCCCGCCCCTCTGTCCACCAATGGCCCAGTTCAGGGGACCCGACACAGGCAGTCACTCTGCGGCCTTACACACCCTGGCCCTTCGCAGCCCAGACCAGATGTGATCCGGAGACACTCTCTCTCTCTTTTTCACACAAAAAGACACCTGCTGACACACACTGTCCAGCGGGGACTGAACCAGGGTCGTCCGGTCGCACCGGAGAAGAAACACGTCTCTTTTTTGAATTGAAGGGAATGGCGGGAAAGTGGGTCAAATCAAAGCTGCTACTCTGCCCTTTCCGTGACTCTTTTTGTTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013125:ENSDART00000019910:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.358 A=NA C2=0.346
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=62.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=15.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCCCGGACCATATACTCC
R:
CTGCTGCATAGTGTCCTGGTG
Band lengths:
357-905
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]