GgaINT0073154 @ galGal3
Intron Retention
Gene
ENSGALG00000008266 | COL4A6
Description
NA
Coordinates
chr4:14199088-14199647:+
Coord C1 exon
chr4:14199088-14199235
Coord A exon
chr4:14199236-14199443
Coord C2 exon
chr4:14199444-14199647
Length
208 bp
Sequences
Splice sites
5' ss Seq
GATGTAGGC
5' ss Score
2.52
3' ss Seq
TATTGAGTTATTTCTTGTATTGA
3' ss Score
-5.53
Exon sequences
Seq C1 exon
ATGTAGCTGACATTAAAGATGCTCCCCATCCTGGTTTGGCTGCCTTGATGATAAAGGTAAGACTGGTGCTCTACACTGTGGTGTCTGGTAAAGGAGACAAAAATGGATACATCATAAGGGGTTTCACTCTTGCCAGTGGTGTAGTGAT
Seq A exon
GTAGGCAGTAACCCTTTTCATAGGTATTTTATTATTAGATCACTAATGCTTTTGCATTTCTAAACTTTATGCCTTCTAAGTAGGCTGCATGTGCCTTAAGATCCATTTGTTATATAAAAAACAATGCTGTGCTTAAAGAGTTTGGAAAGCTGTCCACAAAAGTTCCCCACTGTTTGTATGTCATAATCTATTGAGTTATTTCTTGTAT
Seq C2 exon
TGATTCAGGACTTCCTGGAGTCAAAGGATTGAGCGGGGATGTAGGTCCTCAAGGCCCTGCTGGTATGAAAGGCTTCCCAGGTCTTGATGGTGCTCCAGGACCTCCTGGGGAAAGAGGATTCTTAGGACCACCTGGACCTTTTGGTCAAGATGGACGTCCAGGTTTCTCTGGGCCAAAAGGTATGTATTCCATCTGGGGAACAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008266:ENSGALT00000013447:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.768
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=WD(100=88.4),PF0139113=Collagen=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTTTGGCTGCCTTGATGA
R:
ACCTTTTGGCCCAGAGAAACC
Band lengths:
299-507
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]