GgaINT0125664 @ galGal3
Intron Retention
Gene
ENSGALG00000009058 | F1NGR8_CHICK
Description
NA
Coordinates
chr17:791636-793331:+
Coord C1 exon
chr17:791636-791770
Coord A exon
chr17:791771-792318
Coord C2 exon
chr17:792319-793331
Length
548 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GAGCTGTGCTGTTTCCACAGGCG
3' ss Score
8.5
Exon sequences
Seq C1 exon
CTGTACCAGAAAGCTCCCAGGCTGGAGAAGAGGCTGCCCGATTACTGTGCTACCAGCACGTTTGTCTATCTGCTCATCACAAAGGGCTACAACTTCAACAACCGTTCCTTCCCCAGTATTGCCTTCCAGAAAAAG
Seq A exon
GTGGGTAACACCAGGCCACATAGCCATCCTATGGTATTCGTTCAGCACTGGGACAAAAAGTAAGAGAGATGAGCTCACACCACGAGCTGGAAAATGTGCGAGGGAAGGTCCTTGGGAACAGCAGCAGGATGGGACTCCCCGTTTTGGGGCATATATTTTTGGGAACAAATGAACTGAGTTAACTGTAGGGTGGTCACGGAGTCAGGAATGTCAGGGTCCACCAGTTCCTCCTTGGCCCTCCAGACAGCGGAGATCTCAAACAACCCGGGCAGGATCCCAGCTTGGCCAAGTCCCACCACGTACATGGGGCATGGGATGGGCAGCAAGGTCAGGACTGACCCAGGCAGATAAGATCCTCCTCCCATCAGATGAGACCAGTTAAGCATATGGACACTGACCCGCCAGGGCACTGCTTTGTGCCTGGGCTGGCTGCACCCACAAGTGAGCAAGGACTCGGGGTGCTGTGAGCCGCCCACCATCGGGCTGACAGTGGAAGGTCCTCTGAGGCCCACAGAGCTGGGCTGACCAGAGCTGTGCTGTTTCCACAG
Seq C2 exon
GCGGGAGAAACCTCCATCGGTTGGGCCCTTGGCTACATGCTGAACCTCACCAACATGATCCCAGCACAGGAGCCTGCTTCCCACAGAAGCATGCTGTACAACTACTGGGTCATCCTCATCCTGCTCTTCGTGATCACCACCCTGACAGCTCTGCTGACTGCTGTCTACCTGCTCCGGCGCAGCAAGTCCAGCACAATCTAACCCTGGGACAGGACAGGCCTTCTCTGCAGCACCCAGCACCATCCTTCCTGCTGGAGTCTCCGTGGCCTGAGTACTTGGGATGCAGCAAGTGCTCAGAGACACCCACCCCACCACCTGATGCTGTCTGCCCCAGAAGGAAAGCTGCCCCTTTTTGCACTCCCCTCGCTTTCAAGCTGCAGAAGGAGGGGGATAAAGGAGGAGGAGAATGTCTTAAGGGATTCCCAGTGCTACTCAGGGACAGATGCTGGAGCAGGCTTGAGGTCTGGACATTTGTATCTGGGGTATCTGTCTGCCTCTTGACCCAAGCTGGTCTGGGCCAGCGAGCCCAGACAACTGTATTCTCACGTACATGGGGAGGGTGGGGAATATTACTCTAGTCCTTATAGCCGACTCACTACCTGTCCCTGGAGGACCAGCCCAGCCATTCAGAGGAGCTCTGGGCATCACCCAGAACTTAACTAACTTTCTGGTGGATGCACAAACCCCACTGAACTTCCTGTGGGCCAAATCCTGGCCTGGACTTCCACCTGCCTCAGCTCAGGGCCATCGGGTAGGGGCTTAGCAACAAGCAGAGCAGGCAGCTTCTTGTGCCCCCCAGCAATCAGATGCAGTGCCTTCCCCATTCCTGCGGTCCCTACACCAGTCTCAGCTCTGCCACAACAAGTGCTGCCTTGGGCTCCCAGGTGTGCAGCTGCTTCAGGAGGGGCTTGGACTTGCTGCAGGAGCTGAGCTTTGTGCTGCTTGAGGGTTCGAGCCCTGTGCCACCCCAAGGCAGACAGCTGGGAGGATGTGCCTTTATTTCTGAACAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009058:ENSGALT00000014744:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=FE(10.2=100)
A:
NA
C2:
PF0115012=GDA1_CD39=PD(7.4=47.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACCGTTCCTTCCCCAGTA
R:
GTGGGTGTCTCTGAGCACTTG
Band lengths:
345-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]