GgaINT0002710 @ galGal3
Intron Retention
Gene
ENSGALG00000012225 | CIRBP
Description
NA
Coordinates
chrUn_random:970908-972051:-
Coord C1 exon
chrUn_random:971945-972051
Coord A exon
chrUn_random:971047-971944
Coord C2 exon
chrUn_random:970908-971046
Length
898 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTTATCTTTCTGGTTGTTAGTCT
3' ss Score
4.8
Exon sequences
Seq C1 exon
TGGTGGTGGTGAAAGACAGAGAAACGCAGAGGTCCAGAGGCTTCGGCTTTGTGACGTTTGAAAACATAGACGATGCAAAGGATGCCATGATGGCCATGAATGGGAAG
Seq A exon
GTAAGGAGGTTCTGCAGCAGCTGGGTTTTTTTCCCCTTAAGAATTATAGAACGGCCTGGGTTGCAAAGGACCACAATGCTCATCTCATTCCAACTCTCCCCTGCTATGTGCAGGGTCGCCAACCAGCTGCCCAGAGCCACATCCAGCCTGGCCTTGAATGCCTGCAGGGATGGGGCATCCACAACCTTCTTGGGCAACCAAGAAGCAATGAGATAAGCTTGGTCGGTGTGCTTCTCTTGGAAGCCACGAAAAAAAGATAAATACTGGAATCTTCCCAAAGAAACAGCAGAAAAGGATACGGAGCAGTGAGGCTTAGTGGGATCCTGCTGTGTTACTGCATTCTGAAAAAGGCTGAAGCTATAATCATAGAATGGTTTGGGCTGGAAGGAACCTGATGGTTCATGAAGCTCCAACTCGTCTGCTGCAGGCAGGGCTGTCAACCTCCACATTGAATACGAGCCCAGGCTGCCCTGAGCCCCATCCAACCTGGCCTTGAACACCTCCAGGGATGGATGGGTCATCCACAGCCTCTCTGGGCAGCTGTTCCAGCACCTCACCACTCTCATAGGAAAGAACTTCCCCCTGACATCCAACCTAAATCTTCTTTCCTTCAACTTAAAATCATTTCCCCTTGTCCTGCTACCCTTTTGAAGAGTTGGCTCCCTTCCTGTTTAAAGACTCCCTTTAGGTACTGAAAGGCTGCAATTAGGTCACCCTGCAGCCTTCTTTTCAAGAGTGGCTTTGTAATGGCTTGGGAATGCATCTGTATGTGTAGTCAGCTCAGTTGCAGAAAGCTAGTACATGCTGGTATCGAAACTCCTGGGTTGCTTCACTGGGAGCAAAGTTGTGTGCCTCTCTGTGTAGCGTGCATGAGCTGACTTATCTTTCTGGTTGTTAG
Seq C2 exon
TCTGTAGATGGCCGTCAGATCAGAGTTGATCAAGCTGGAAAATCATCAGAGAACAGATCCCGAGGCTACAGAGGGGGATCCACTGGGGGCAGGGGCTTCTTCCGTGGGGGCAGAGGTCGGGGCCGTGGCTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012225:ENSGALT00000019966:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.908
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(49.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=14.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGGTGGTGAAAGACAGAG
R:
CTCTGGAGAAGCCACGGCC
Band lengths:
246-1144
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]