GgaINT0039361 @ galGal3
Intron Retention
Gene
ENSGALG00000005180 | COL11A1
Description
NA
Coordinates
chr8:12026118-12027083:+
Coord C1 exon
chr8:12026118-12026186
Coord A exon
chr8:12026187-12026849
Coord C2 exon
chr8:12026850-12027083
Length
663 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
TGACTTCTTATATTTTTTAGCTT
3' ss Score
8.35
Exon sequences
Seq C1 exon
GTTAGAATTTCATCTTGGCCAAAAGAGAATCCAGGATCTTGGTTTAGTGAATTTAAGCGTGGCAAACTT
Seq A exon
GTAAGTGATCATTGTAATATACACGAATCAAGTACATGTTATGAATGATCAAGAGATCCCAAGGAATCTTAAAATATAGAGATAATAACAAACTTAAGACTTTTCATACTCGGTCCTTTTGCCCTAAATATAAGAGCAGCTACAAGGCCTCTTGCCACTGGTCAGCAAGAACATGCACTGTACTGTACCAGTGCTCTGTAAATGCACAACAATCCCAACAGTCACCTGCAAAGCTGATGGTGAGGGTCTGGCTTCTGGCAGACCACAGATCACCACTTAATTACAGTAAAGCAGCTGGAGTACAGATTTCCTGCTCTGGTTAGATAACTGGAAATATACTAAGTATGGAAAAATGAGGGTGCAAGCTGATGTAACTTTTTAATTAACTACAAACAGATTCCCAAAGACATTCTGCTATTTTACATGATATGGTAGTGGTAAATGTGTCTTTCCCATTAGAAAAAAAATGCATGCTTACTAAATATGTTGTTACAATGTGAAAAACTATTTACAGAGTTATAGCTTTATTGAACTTTAAAATCTCTTAAAAAGGGATGTGATGGTTTATTTTTTTATTAAGGACAGTTATGTGGTTCTTCCATCAACAGTAATTTTGTTCTGCATTTTAACACAAATATTCATGTGACTTCTTATATTTTTTAG
Seq C2 exon
CTTTCATATGTGGATGTTGAAGGCAATTCCATTAATATGGTTCAAATGACATTCCTTAAACTACTGAGTGCCTCTGCCAGACAAAATTTCACATACAACTGCCATCAGTCTGTAGCTTGGCATGATGCCTCAACTGACAGCTATGACAAAGCACTAAGGTTCTTAGGATCAAACGATGAAGAGATGTCTTACGACAACAATCCTTACATCAAAGCGCTTCTTGATGGCTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180:ENSGALT00000008321:65
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
NA
C2:
PF0141013=COLFI=FE(36.3=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:
GTTAGAATTTCATCTTGGCCAAAAGA
R:
CGCACAGCCATCAAGAAGCG
Band lengths:
303-966
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]