DreINT0049811 @ danRer10
Intron Retention
Gene
ENSDARG00000052063 | col4a5
Description
collagen, type IV, alpha 5 (Alport syndrome) [Source:ZFIN;Acc:ZDB-GENE-030131-2281]
Coordinates
chr7:50873513-50874269:+
Coord C1 exon
chr7:50873513-50873575
Coord A exon
chr7:50873576-50874233
Coord C2 exon
chr7:50874234-50874269
Length
658 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TATAATTCCGCTCTTTTCAGGGT
3' ss Score
10.11
Exon sequences
Seq C1 exon
GGTGATCCCGGACCCCCAGGTCTTCAAGGGCCTATCGGTCCTCCTGGTCCAAAAGGGTTTGAG
Seq A exon
GTAAGACTCTTATTTCAGTATCACTCATACGTGCAGTTAAATATTTGGAAAGTAATCAAATAAACTCTACCATGCACTAGGCATGGGCCGGCATAAGATTCTGATGGTATGATAACCTTGGATAAAAATATCACAGGTTTCACAGTATCATGGTATTGTGGTTACTGCTCTAAAATTTATTATTTTTAAATGAATGGGTAAAAAACAAAAAAAATTTCACCTTTGAACACAATATATTAAATTTTTTTAAATATTTAAAATACTTTGAAGCAGTAAACATGTCAGACTTAAAAATTCAAATGAATCATTAAATCAGCTGTCTTCATTAGTTTCAAAAACGCAGATTTCTTTACCATTTAAAACAATATCTTTTGATATTCTTCCTGCTGTAGATAATGTTGTCCTAAAAATGTTTATATATATATATATATATATATATATAAGAAATATTACACATACTTTAGGAATAGTATTACAGAAATTTTTAGCGGTTTTAAAACCTTGACTTTTCTAAACCGAGGTATACCTAGAAAATCTTTATTGTCTCATGCCTACCATGCACATTGTTTAAATAAATTGATTAAATTACACTTTATAGTTATACTAATACTTAAACATTTATACTAACTCTTTTTTTATATAATTCCGCTCTTTTCAG
Seq C2 exon
GGTCGCCCAGGCCCTCCTGGTCCACCGGGACCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052063:ENSDART00000073827:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(35.7=100),PF0139113=Collagen=PU(8.8=23.8)
A:
NA
C2:
PF0139113=Collagen=FE(19.6=100),PF0139113=Collagen=FE(19.3=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]