GgaINT0125285 @ galGal3
Intron Retention
Gene
ENSGALG00000002546 | Q90689_CHICK
Description
NA
Coordinates
chr17:8208774-8210267:+
Coord C1 exon
chr17:8208774-8208827
Coord A exon
chr17:8208828-8210159
Coord C2 exon
chr17:8210160-8210267
Length
1332 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
AGCCCTGCTGTTGTTCACAGGGT
3' ss Score
8.4
Exon sequences
Seq C1 exon
GGTGAAGATGGCTTCCCTGGCTTCAAAGGGGATATGGGCATCAAGGGAGACCGG
Seq A exon
GTAAGAACCTGCCCCCATTGAGGTCTCAGAGTGCTCCCACAACAGCTCAGCAAGGCAGGTTTTTGTCATGGTCCTTCTGGAGCATTCATGTTCACCTCAAGCACAGGCATTATAAATCCTTATATTCCCTGGTCCCATTGTGAAGGTAAAATAAAACAGAGTAGTAATAGAGGGGCCCCATCTTGCTGCTTTGATTGCGAAGAATCCTGCACACAATCTTGCTGTATCATATCTATTTCCAGTATCTCTTCTCTCCCATAATATTACATCTGGGGTCTGATAGGCATCGTTATTTGCTGAGCGTTGTGTGCCTTCAATGCCATCAGTGTGAAGTGCAGTTACCAGGAACACAGAGCAGCGGGGGTGCAGGTTTATGTTACTCCTATCTTTAGCTCCAGAAGCTTTTATAAGCAGTGGAATGTGCAGGTCACCAGAAACCCAAAATCATGCTTGGGTGCTGTCTGTCCTCAGCACCTGGGCCCTGGGTGCTGTGTTCCCATCCCATCTCCTTGGGTGATGGCATTGCTTGGTGCTCGGCGCATCGCCCAGCAATCAGGAGCACTCTGTGCTCATCCATCCCCACACTTAAAGGACAAATGAATGCCTTGCATGAAGGCTCATAAAACTGTAAATCAAATCCTCCATCTCTGCTTGGCATTTCAATGGATAATCGATCAGGTTGGTGCTCCACCTGTCACCTTGGAGCTGGTCGTTCCGTGGCGCGAGGACAGAAGGTGGCACGCTGTCCTTGCCGTAAGCTCACAGCTCCGCATCCCACCAGCGCTCTCCCTGTGTTTTATGATGCTATGAAAGGCCAAGGGTACTTGAAAGCCTCGCAGATAAATCTGCAGCCACCCAGCTCCTTGTGAGCCCGCGTTGGTGTGGCAGCATCTCCTGCTGCGCTGCGTGACAATGTTGTTGTGTGTGCTGGAGCCCGCAGTGTCATAACAATTCATGTTAACGGCTCAGTCCTCTCCGTGCTCAGGTTTCCTAATGGTTTGCAGCACAAAAGCTCCAGCCTGATCTTTATTCTCCGGTTGCCCAACTCAGCCCTCAATTAAGCGCTTCCCAGGGCTTGCTTGCACATCAAACTGCAATTTGGGAAGCGGGAAGTGGGTAAAAGGGTGCGTTGCAATCAGAGCTAATGACGGATGTTTCGGTGGAGATGGGATAATTGGGCCACTGGAAAGAGGGTTGCTGCTGGGGATAATGGCACGGCCAAGAATGGGAGCTCTGATAACGCTCTGTGAGTCTCTCGGTGACAGAATGCCTTCACTCCAAGAGTCTTTTGCAGTCTCTGATACTGTCTCTGAGCCCTGCTGTTGTTCACAG
Seq C2 exon
GGTGAAATCGGACCTCCGGGCCCCAGGGGTGAGGATGGCCCTGAAGGTCCCAAAGGTCGCTCGGGTCCCAACGGAGACCCCGGTCCTCTCGGTCCTGCTGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546:ENSGALT00000039035:29
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(24.6=100),PF0139113=Collagen=PU(12.0=50.0)
A:
NA
C2:
PF0139113=Collagen=FE(55.6=100),PF0139113=Collagen=PU(38.6=88.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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]