GgaINT0073128 @ galGal3
Intron Retention
Gene
ENSGALG00000008266 | COL4A6
Description
NA
Coordinates
chr4:14177439-14178697:+
Coord C1 exon
chr4:14177439-14177555
Coord A exon
chr4:14177556-14178628
Coord C2 exon
chr4:14178629-14178697
Length
1073 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGT
5' ss Score
10.49
3' ss Seq
TGTCATTTATTTTTTATCAGGGT
3' ss Score
8.92
Exon sequences
Seq C1 exon
GGTCACCCTGGCCAGTCTGGACCCAGGGGTCCACCTGGCCTCGATGGCTGCAATGGAACCATCGGGAGTCCTGGTGTTTCTGGGCCAGATGGATTTCCTGGCATACCCGGGCTGCCG
Seq A exon
GTACGTCCCAAGGCAATTGAAGTGTTTTGTTGTCACTAAGCCAGGATTTGCTTTTCTTGCCAGTGGTGGAAAAATAGCTCTGAAGTTCTTAGGAAGAACCCTATAACCCCGAGTTCCTTAGTATCCTTAGAGCTCAGTGTCATTTTCTTATTGAAATTCCACTCTTATTTACTGTGTAAATGTTAACTTCTGAGGCTAAAATGAAGATCCTGTGACAATATGCTCCTGCACCACCCTATCCCTTTGTCACTGGCAACATTCAAGCTGGCTCAAAAGAGACTGTGATAAAGTTTTTAAGAACTATAATGTGTCAAACATCTTCCAGTTGAAATGTTTCAAGTTAGGGAATGCTGATTCAAAAAAGGAACTGATTGTGTGTCTCTTTTACATGTCATCCAGACTTGAAGTTTATGTAATGTTGAAAATAACAAAGCAGCAGAAAAAAAAGTTAAAGTATGACTTTCTAAAATAACTGATTTACTCATACCTCCTGCTCAAATTTCTATTTTGTAATGCGTGTGGGATTTTATTTTTGGCAAGGAAAGCTGCTTGGATCAGCTAGCTTCTCTCAAATTAAGGTGACAATTACATGAAATCACCTTGGATAAACTGAATGGAATGATGAAGATTAAAATAAATGGGGTAAATCTAGAATTATAACAGCTGCTTTTTCAGAAGATCAATGCAATCTGTTGTTTCTGGTTTTGGTTTTTTTTTTTTTGTCTCACTGTTTCTAAGTAAATATGGTAATTTACAGTGCTACGGAAGAGATACATACATGTACAGGAGAGTTACAGCGTGTCATACAGATTCAGGGAGAATCTTCGATGTTTTTTAAGGCCTAAAATAAAAGGAAAATCTAATATAAGCAGGAAAATACCAGAGAAAATGTTTGCAGAATGTTGTTTTTCTAAAGCTCCAGGAAGTCTTAAATTCTCCTAATACCACTGCAGTGCTACTTTTGTAGGTTACTGGAGCAAGAAGTTCCTTATACCGAATATAATTTCTTTCAAAACCAAATCAGTGTATTTCTTTTTCTAGAAATTTACTTTTTGTCATTTATTTTTTATCAG
Seq C2 exon
GGTCGTCCTGGTCCAAAAGGTCTTAAAGGAGAACCTGTTTATGCTCAAGGCAGCCTTAAAGGAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008266:ENSGALT00000013447:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.957
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(59.4=100)
A:
NA
C2:
PF0139113=Collagen=PD(26.6=73.9),PF0139113=Collagen=PU(13.3=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCACCCTGGCCAGTCT
R:
ATTCCTTTAAGGCTGCCTTGAGC
Band lengths:
182-1255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]