GgaINT0124402 @ galGal3
Intron Retention
Gene
ENSGALG00000004767 | ODF2
Description
NA
Coordinates
chr17:5738343-5740047:+
Coord C1 exon
chr17:5738343-5738571
Coord A exon
chr17:5738572-5739921
Coord C2 exon
chr17:5739922-5740047
Length
1350 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGT
5' ss Score
5.39
3' ss Seq
TTTCTCTGTTTCTTTTTTAGCAA
3' ss Score
11.9
Exon sequences
Seq C1 exon
GTTTCCTTTCATTGTATTCTCCTTTCCCGTCTGCGGGAGAAGAGCCATGAAGAACCGTTCCTCATCTCCCCCTTTGCACGTCCATGTGGATGAAAACACCCCTGTCCATGTCCATATTAAAAAGGGTCAGAAAACCACACCTGCAAAATGCCAGGTAGGAGTGTGCAGCTGGGTGTTTGTGAGGGCTGCAGGGAGGAGGCAGTCCTGGAAGCACCACGGAATCTTTGAG
Seq A exon
GTCTGTTTTACCATAGTATTAGAACTGAGACCTGTTGCCTTTTTAACTACATGCTTAGCCACTGGTGAATTTTCAGTGACGTGTTTTCTGTGTTTAAGATGATCTAATTATGCTACAGAATATATGGCTTGTTTTCATGTTTGATTAAATGACTGGGGCTGGACTCAATCATCTCTAGAGGTCCCTTCCAGCCCCTACAATTCTGTGATTATGAGAACTGTTGCTTTCAGTGAGATGCAGCTTGGGGGATTTTTTCCTCTTATGTCGTGGATTTGTATTCTCATACTGTTATTTCTTTAGCTTTGTCCCTGTTTTTGAAGGAAGGGTTTGGGGTAAGGAAATAACTGAATGTTCCGTGTTCTGTCTCGATTGTATTAAAATTCACACGTTTAGAAGAAGAGGGACTGGATTCAGACCATCTTCTGGCATTAAGCACCTTGTCAATCTGCGGAGCTGCACAGCAGAGAAGGATCTCTTCATACCCTTGTCAGCAGTAGATAGAAGGCAATACTGAAACTGTGTTGTAGCTGTCTTGCATCCTTTTGAGGTTGGATGGTTATGTAAAGCTTTTCTCTACTGGTACTGGAAGTTGCTAGCTCATTCTTGTGTCTGCAGACATGCTGGTACCAATTCTCCATTAATTTTCTCTTTCTTGCTAATGGCAAATCAGGGTCTGACAGTGAAGTCGCTGCCTCCTATTAATTAATTCCCCATAGGGTACTTTAGAATGGCTTTTCTTCCTCATCAGATATTAAAGTTGTGCAAACACACTTTGACTTTTCATCTTTTAGAGCACCTCGAATTTAAGGCAAGTAAATGTGGATGTACTTTTGACTCTAAAACAAGGAAAATGCTTCAGGGGCTTTTCATAACCAATCACACTGTGTGATGCTTTTTCCTCTCGTAGTGTTGTCAGCTGATACAGTTGCTGTACTGTGAGATTCATCTGGAACAGAGAAAAAATCTACTGGGTTGTTCCCTCTGCACCCAAATGGGTTACATCAGTGTTCTTTGCATATCTCCCTTCAGAGGAGACTTCCTTCCCCATACCCTGTGCCCAAATCTTCCTGCTGGCTGAGTAAGGCTTTCATCACATCACAGTTGTGATTATTTCAGTCATACAACAATCTTTACATGATAAGCAGCAAGAACACATCAGCTGAACGTGCAATAACCTTTCCTTCTGGCTAGTGTTAGCCTCTCTGGTGGTTCACCTGATCTCATGTACCATGTATAACACTGACTTTTTTTCTGTGTGTGAATGATCTTCCATTTCTTTTTGCAGCCATAAAAATTGTAAATAGTTCTTAGAAGATCTTAGCGATCTTATTTTCTCTGTTTCTTTTTTAG
Seq C2 exon
CAAAAGCACAAACAGAAAATGAAAGGGAATACTGTGAACGTGCGCCGAGCAGTCCAGGTGAAAACAAAGGCCCCCTGGATGCCCCCAGGAAAAACATCTGTCCTTGATTCCACCTACAAATGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004767:ENSGALT00000007603:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.607 A=NA C2=0.929
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GTATTCTCCTTTCCCGTCTGCG
R:
CTCCCATTTGTAGGTGGAATCA
Band lengths:
342-1692
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]