GgaINT0070701 @ galGal3
Intron Retention
Gene
ENSGALG00000010521 | COL25A1
Description
NA
Coordinates
chr4:38928274-38929198:+
Coord C1 exon
chr4:38928274-38928309
Coord A exon
chr4:38928310-38929144
Coord C2 exon
chr4:38929145-38929198
Length
835 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTCTTGGCTTCCCTTCACAGGGT
3' ss Score
10.67
Exon sequences
Seq C1 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGACCCCGG
Seq A exon
GTGAGTCCCTTGTCTTTCCATGTCACTGTGTTACCCAGGCTGTGTGCGTCCCAGCACACATGGCTCAGAGGAATGAAGGCCACGCATTGCAGGCATCTTCCATGCTCTGTCACAGGGGCTTCAGGCAGCCTCCTAGGGCAGCGTGTGGGGGAAAGAGAACGTGATTCGCAGCAGGAGGTGGCTCTGAGCCTTAGAAATCTTGATATTTGGTTGGATAACTGCTGCACAGCTTGCGCTGGTTGGGGTCCTGCTTTCCTGACTAAGGTTAGGGATTTGGTTTACATAGGAAAGCATGCTTGTTTTGTGCTAATATGGAATCAGTGAAATGGAAGCAGGCATGCTAGGGTTCTACTGCAAGCACTGTTATATTTAAAATACATGCTAGATCCCTTGTTTCTGAGTGTGATAAAGTCAGTGAAGCGTGAATCACCATAACGGAGTGTATCCACCTATAAAGTGGACATTTCAGATTTAATAAAAGAAACAGACAAAAAAAAAAAAAAACCCAATGTTTAAAACTATGCAGCATTTGAACCTTCAACTTCTACTAGCCAAATTTCTTTCAGTAGCTTTTTAAAATCTTTGTATGACTTCCATGAAGAAAGTCGAATCCAACTAGAAAAAAAAGATGGGCTACTTTGAAATGTGACAGCTTATATAGGTTGAGTTTTGAAAGCCAAACAGATTTGTTTGCCCAGGTCCCAGCACAACTAAATCTGCATTTTCATCTGGGGATGACTGATTCCATATTAGTTCTTGGTTAGATGACAGCTACTAAAGCTAAAGACTTGAAGGAGCTGGACCTCTCTCTTACCCTCTTGGCTTCCCTTCACAG
Seq C2 exon
GGTGTAGATGGCCCAGTTGGTCCCCACGGCCCTGCAGGCCCTAAAGGAGACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521:ENSGALT00000017084:24
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(16.4=100),PF0139113=Collagen=FE(12.8=100)
A:
NA
C2:
PF0139113=Collagen=PD(4.9=22.2),PF0139113=Collagen=FE(21.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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]