GgaINT1019969 @ galGal4
Intron Retention
Gene
ENSGALG00000007000 | NR2F2
Description
COUP transcription factor 2 [Source:UniProtKB/Swiss-Prot;Acc:Q90733]
Coordinates
chr10:15328163-15330606:+
Coord C1 exon
chr10:15328163-15328735
Coord A exon
chr10:15328736-15330078
Coord C2 exon
chr10:15330079-15330606
Length
1343 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
TTCTTCTTTATTCACTGCAGCGG
3' ss Score
8.63
Exon sequences
Seq C1 exon
CCACCAAAGGGTGAGAGAGGGAAAGAGAAAGAAAGGGGGAGGAGAAAAAAAGCAAACTGCTGCAAAGCTGAGCTGCAGAGCAAAGCAAACAAACTTTGAAAATAAAGGGGGAACAGGAAGTTTGGCAACGGTGTCCAATAGATATGGCAATGGTAGTCGGTGCGTGGCGAGACCCCCAGGACGATGTGCCCGGAGCTCAGGGAACGCAGCCAGCGCCCGCCCCGCCGGTGCAGGGCCCCCCGGCCGGGACCCCGCACACCCCGCAGACCCCGGGGCCCGGCGGCCCCCCCAGCACGCCAGCGCAGAGCAACGCGGCGAGCCAGCAGAGCCAAGGGGACAAGCAGCAGCAGCAGCAGCACATTGAGTGCGTGGTTTGTGGGGACAAGTCTAGTGGCAAACACTACGGCCAGTTTACCTGCGAGGGTTGCAAGAGTTTCTTCAAGCGGAGTGTAAGGAGGAATCTCAGCTACACTTGTCGTGCCAACAGGAACTGTCCCATTGACCAGCACCACCGCAATCAGTGTCAGTACTGCCGCCTCAAAAAATGCCTCAAAGTTGGCATGAGACGGGAAG
Seq A exon
GTATTGGGATTTCATTTGTTTTGCAATTTTATTTTTTTCCTCACTCGCTGCCTCTTAGGTTTGCTTTTATTATTATTATTCTGATTATTTTGAATTATGACGATTATGCTTTTATTGTTAAGCTCCCTTCCCCCCCCTTCCCCCCCCTCCCCCAACCTCAACCCCACCACAACCCTCCCCCCCTCCCCAAATAAACTTTCTCTTCGTGAAAGAAAGAACCGTGGGAGGGGAGGAGGGGGCTCCCGCATGCTGCCCCGGAACCCACCGCGGCCGTCGCCGTGTGCCGGGGGGCGGCTGCTCGGGGACGGATTTCCACTCCGGAGCCGATGGCTCCGCCGGACGCTCGCTGTCCCCGCGGACCCCCCCTGCATGCTCGGGGCTCCCCGCTCGCATTCAGCCCCCGGCCCGCGGCTTAACCCAGGCGGTTCGAATTACGGTTACAATGGAACTCACCCTCCCGAGGGCTCTACAGCACTCCACTGTGGATTCCCAACCGGATTTTCCCTCCTCTAAAAACACATAGACACATCCCTCCCTCCGTGTGTGTGTGTGTGTGTGTGTGTACCGCCGTTTGCCTGCCTCTCCCCTCGCTCTGACCCCACTTTTCTCCTTCCTCCCTTCTCCCCGTCCTTCCTACGGGGGTGAGCAGCACCCAGAAGGAAGCGAGGGGCGATGGGGGCTTTGTGCTATAAAATTAGCCGGGAAATGTGAGCCCGCGGCCCCGCAGCGCGTCTGGACGCTGCTATGTAGGTTAAGGGTGAGGGGGCTCGGGACTTGCCGGGCTCCTCTTTGTGTTCCTGCGGGGGGAACCGGGCTCGGAGCGCGGCCGGCAGCGAGCAGAGCCCGAGCGCGGTGTCCGCCGTCCCCTCCCCGCCGTCCCCCTGTCCCCCGGCCCCTTTTTCTCTCTCCTTTTTTCCTCTCCCCATGTCAATGTCTGAACAAAACGCCACAGGCCCGCTTGCACGGGAAGGTGCCGCCGGATAAAGCCCGGCCCTGGGGGGGAGGTGATGCTGGGGCTGCTCGCTCCTCGCTTTCTTTTTCTTTTTTTCTTCTCGGGGGTTGCGAAGTGTCGGTGCCCTCTGCCCCCTGGCCGGCCCTCTCCCCCAGCCCCAAATCGATAAAGCCGCTTCGGTCGGAATGAAGGAAAACACAAAGCGTGGCCGTAGGAGGGGTGGAAGGGGGGGGATCGCTGGGTCCTGCCGTGTGCGGGAGGTGAGGCTGTGCCGGGCCGGGGACGCGCTGGGCTCGGGCCGCGGCACGGCCGCACGGAGCGGGCTCGGGGCTGGCGGCGCTCGGAGCAATTCAGATATTAATAGCTGTAGTTTCTTCTTTATTCACTGCAG
Seq C2 exon
CGGTCCAGAGGGGCAGAATGCCACCCACACAGCCAACTCACGGTCAGTTCGCCTTGACAAACGGGGACCCTCTCAACTGCCATTCCTACCTATCCGGATATATCTCCCTTCTTCTGAGAGCAGAGCCCTACCCCACCTCCCGCTTTGGCAGTCAGTGCATGCAACCCAACAACATCATGGGCATCGAGAACATTTGCGAACTGGCAGCTCGGATGCTCTTCAGCGCGGTGGAGTGGGCCAGGAATATCCCCTTCTTCCCAGACCTGCAGATCACAGACCAGGTGGCCCTGCTCAGGCTGACCTGGAGCGAGTTGTTCGTGCTCAACGCCGCCCAGTGCTCCATGCCCCTCCACGTAGCCCCGCTGCTGGCAGCCGCCGGCCTCCACGCTTCGCCAATGTCTGCTGACCGAGTGGTCGCCTTTATGGACCACATACGAATCTTCCAAGAGCAAGTAGAAAAACTGAAAGCGTTGCATGTCGACTCCGCAGAATATAGCTGTTTAAAGGCCATAGTCCTCTTCACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007000:ENSGALT00000011332:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.486 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=WD(100=48.6)
A:
NA
C2:
PF0010425=Hormone_recep=PU(67.3=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGTCGTGCCAACAGGAACT
R:
AGAAGGGGATATTCCTGGCCC
Band lengths:
357-1700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]