GgaINT0126639 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2449656-2451210:+
Coord C1 exon
chr17:2449656-2449833
Coord A exon
chr17:2449834-2451073
Coord C2 exon
chr17:2451074-2451210
Length
1240 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TTATTTATTTATTTTTCCAGCTG
3' ss Score
9.3
Exon sequences
Seq C1 exon
CATGCAAGTAAAGACCCCAAAGATGGGAGAGACAGCAGAGATCAAAAAGAATCTAAAGAGGAAGGCAACAAAAACATCCTGGAGTTTGGGAAGCCGTTGCCATTGCCCTCTCTCCCGGGCCTTCACCAGTCACTACCTCAGAACCAGAGCTATGTGGCCACCTCGAAGTCGCAGACGG
Seq A exon
GTAAGAGGACAGAGCTAAAATCCTGAGCAGCACCCAGATGTGTGTGTGTGTGTGTGTGTGTGTTGGGGTGTGCGGGCTGAGGCAGCTTGTCAAGGACTGACCCCTTTGGTAGTAGCTTTTCCACAGAGAATTGTAGTATCACAGCATGGTTGGGTTGGAAGGGATCTTGAAGCCTCCCCTCTGTTGGTGCAGCACAGGATGCAGTTGGCCTTCTGGGCTGCAAGCACACACTGCTGCTCATGTCCAGTTTTTTGTCTGCCAGGACCCCCAAGTCCTTCTCCACAGGGCTGTTCTCAGTGAGTTCTCTTTCCAGTCCATACTCACGTCTGGGGCTGCCCCAACCCAAGTGCAGCACCTTGGAGCAGAATCTGCTTTAGGATTTCCTTGCCTGGCAGCATCAGTAGGGCTGTCGCTGTAGATCTTGTTTTGACAGATGCTGCTTACTGTGAGCCACAGCTGGGTAAATAAAATGATTTGGCTTGGCAGAAAGTTTTTGAGGGGACTCTGTAGATTTTTGCTGAAACTTTGTCATAGTGAGACGTGAAGAGATGCTTTCAAGGAGCAGCCTGTTCAGCTGCTGGTGCTGGCTGTTTCCTGCTGCATGCTGTTGTTAAAAGCCTGCACTAAGCACACTTCTGATGTGTGTGCACCAAAGGCAGCAGCAGGTGCTGAGGTGTGAGGACTGGTTTGATTAGAAGGCCAGGAGAGAGACTCAACAAATTAAGACCCAATCAAAGCGGTGAAAGGAATCAAGCAAGCTTCCATAGCAGGTGTGAAATGAGGTTAAATGGCAACCAGCTCCTTATTTAAAGTGCCTTTTCTCTGTTTGTTCTTTAGTTATTATATGATGGCTTTATTGTAAGTCGGTATTATTAACCTTGCAGTATCTATTTGAGCAAGCTGGATTCTATTCAGCCTCCTGCGGCATTAGCAATGCTGCCAAACACAGGCTAATTTAAGGATTTGATGCTATGTGTGGTGCTGTAGGGACCAGAGGAAACATGGAGGGGATACTCAGAGTTTGGGTGATTTTGCAGCGTTGGCAAAGAGCTCTTTGTGTGTTTGCACATATGTATGTGTCACCTTTTGGCTGAACTGTAAATAAATTAGTTGGAAGGGGAAGCCTTTTTTCTCAGATCGTGTCCTTAAATACAGTTTCCCACATTACAGCCTCTACTTTCTATCCTTTCTTTTCACTCCTGAACCAACTTTGGCTTTATTTATTTATTTATTTTTCCAG
Seq C2 exon
CTGCTGCAGTATCTCGAAAGAAAAAACGGAGAATGGGAACCTATAGCCTGGTTCCCAAGAAAAAGACCAAAGTGTTAAAACAGAGAACAATGATTGAGATGTTTAAGAGCATAACTCATTCCTCTGCGGGTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:4
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=0.978
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
CATGCAAGTAAAGACCCCAAAGA
R:
CACCCGCAGAGGAATGAGTTA
Band lengths:
310-1550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]