GgaINT0126649 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2466824-2468285:+
Coord C1 exon
chr17:2466824-2466906
Coord A exon
chr17:2466907-2468178
Coord C2 exon
chr17:2468179-2468285
Length
1272 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGT
5' ss Score
6.86
3' ss Seq
ATCTCTGCTCTCTTTTTCAGTGG
3' ss Score
11.51
Exon sequences
Seq C1 exon
ACCCAAGAAGTTACGGTTCCATCCAAAACAGTTGTACTTCTCTGCGAGGCAAGGAGAGCTGCAAAAAGTCCTGCTTATGTTGG
Seq A exon
GTAGGTGGCTCTTTCCCAGGACACAGTGTGTCTGGCAGTACTCCCAGCTCCTGCCAGGCAGCTGCCAGAGCCCAGTTCCCAGCATGGCAGCACGTCATATTCCCCACTGCCCCTTGTGAGTGGTGTTGGGAGGAGAAAGCCACTTTTGCAAGTAATGTATCATCAGAAATGGCTTCATCTTTCTGTGAAATGTGGACTTGCTCCCAGCTTGCTTCTGCATTTGGACACAGTTTTATCCAGAGAGGCTCTCTCTACCCCCAAATGACCTATGTTTGATTTTTCCAATCCAGTAGAACTTTGCCTCCCCGTGCAGTGGGATGGTTGGTTATTTGCATCCAGTGGAGAGGTAGAAAGATGGGAGTGTGATTAAATTAAGACCAGTCAGCAAGAAAGCGGAAAAGAAGAGAACTTCAGTACAGAGGGCTTTATTCTGGGGGTACGTAACTGTCACCAGATGACTTCCAGCTGGCTGGGGTTGTTTTTACCAACAAATATTCCCAAGGACTATCAACCTGTGAAGGACACAGTGGGATCATTTCCCTTCCACTCCAGTACTTTGCGGTACATTTTTGGATGCTTTCTGTTCTTTTGCATTTATTACTCTTTTTTTTTTTTTCTCCTAGCAAGTATTAGTTTCATTGTTCCTGTCTTCAATAGCACCAAAATGTTATTCATTGATATTTAACTACGGCCTCATCGTATGCAACATGTTATCATGCCCAGACATCTTTGTCTGGCTGTCATCATCATCTGTCAGTCTTTGCACAGCTGTGAGAATTTCTGGCCAGATCCCGAGCTTGTGTTGGAGCTCCATCCTCTTTGCAGCCCTTCTGCTTACAGCGATGCAAAAAGGATCACTGATACTAAGTGCAGTTAATCACAGTCCTCAGACAATAAAGCTGGGTGGTGCTGACACTCTGTTGTTTCCAACAGCAGTTCTTTTCTTTTTTTCCTTTTTGCCCTTGCACGGTGTTGATTTTATTTTTTGCAGTGAGAGAAGGGGAATGAAGGAAGTGGTTTGTGTAGAAATGGTAATGCCTTAAAAGTATTATATTCCATGATGTTTCTGAAGCTCCTTGCTTGAGGGCTGTTGCATACCAGATGTCCATGGGACTACCCTGAGAGCTTTCTGGCTTGCGTGTGTAGTAAGAAGGGCTGAAGATAGGCTAGGGGAAAGTCTTTAAAAAGCCTTCAGTAGGGACCTCCTTCTCTTTTTACCCTTTTCTCTGATCTCTGAATTGTGGTTGATGGCATCTCTGCTCTCTTTTTCAG
Seq C2 exon
TGGATGGAATTGACCCTAATTTTAAAATGGAGCATCAGAGTAAGAGAACCCCTCTCCATGCTGCCGCTGAGTCTGGCCATGTGGACATCTGCCATATGCTGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.343
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0002325=Ank=PU(66.7=61.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAAGAAGTTACGGTTCCA
R:
CTGAATCAGCATATGGCAGATGT
Band lengths:
190-1462
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]