GgaINT1019970 @ galGal4
Intron Retention
Gene
ENSGALG00000007000 | NR2F2
Description
COUP transcription factor 2 [Source:UniProtKB/Swiss-Prot;Acc:Q90733]
Coordinates
chr10:15330079-15333861:+
Coord C1 exon
chr10:15330079-15330606
Coord A exon
chr10:15330607-15333586
Coord C2 exon
chr10:15333587-15333861
Length
2980 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTTAATACACTTTCTTCTAGATG
3' ss Score
7.89
Exon sequences
Seq C1 exon
CGGTCCAGAGGGGCAGAATGCCACCCACACAGCCAACTCACGGTCAGTTCGCCTTGACAAACGGGGACCCTCTCAACTGCCATTCCTACCTATCCGGATATATCTCCCTTCTTCTGAGAGCAGAGCCCTACCCCACCTCCCGCTTTGGCAGTCAGTGCATGCAACCCAACAACATCATGGGCATCGAGAACATTTGCGAACTGGCAGCTCGGATGCTCTTCAGCGCGGTGGAGTGGGCCAGGAATATCCCCTTCTTCCCAGACCTGCAGATCACAGACCAGGTGGCCCTGCTCAGGCTGACCTGGAGCGAGTTGTTCGTGCTCAACGCCGCCCAGTGCTCCATGCCCCTCCACGTAGCCCCGCTGCTGGCAGCCGCCGGCCTCCACGCTTCGCCAATGTCTGCTGACCGAGTGGTCGCCTTTATGGACCACATACGAATCTTCCAAGAGCAAGTAGAAAAACTGAAAGCGTTGCATGTCGACTCCGCAGAATATAGCTGTTTAAAGGCCATAGTCCTCTTCACCTCAG
Seq A exon
GTAGGCAGCGTTTCTTTGCTCTCCCCTTCCTCCCCCTGCCCCTCCGAGAGGTGTTTGCTCTTTGCAAAGTGTTGCTGCCTTTGCCAGCCCCGCTGCCCTGCCAGGAGTGGGGCTGGGGGGCTACCCGCGGGGCCTCGGCTCTCAGCAGCCCCCCAGCGTGGGCTGCGGGGGGAAATAACCCATCACAACGATGAGAAATAGACGGAGAAGCGCACCCCGAGCCTCGCTGCGTCAGGCTGGGGAAGGGGGAAGAGGGGGCTCGGGGGGAGGCACCCATTCGCCACAAGAGACTGCGCTTTTCCCATTGAAAATAATATTTTATTTAACAGTCTAGCTCTGGGTTGTTGCATTTAATGACACGCATCCGAACAGCAGCAAAAATCTGTTTGATGTTGTTAAATACAAGGCGTCCTATCAGTGAAACCACTTTAAAAAGAGTATCATTTTATGGGCAGCCAGGAAGAGGGGGGGGGAGGGGGGGAAAGCCCTGCAGGATTAAAAATTGAATTAAAAAAAAATAAAAAAACTTAAATGCGCATAGCTGAGTTTAAAATATGTTCCCTGCCATCCCATAAAATAAAATAAATCAACTTCCCAAAGAGCTGTCTCTGATTGAAACAGAACGTGGCAGCGAGCAGTTCTGTGTCATTGGAGCTAAGGGGAAAAGTTTGCATTTGTACCCAGCAGGAGCTGCAGAGTGCAGAGCGAGGAGAGGGTGCGGAGGGATCATTACCATAAGCAGTCGGGGACAGCAGGAAAAAGTCAGAGCAGAGGGCAGGAGCTGCGCTCCGCCGAGCAGTTCCGGGCTGGCACAACGCGAGGAGCGCAGCTCGGGGCGCTGCTGGGATCATCAAAGCGGAGGGGGGAAAAATATGTGTCAACTTTTGCTGCCTCGAAATAGTGCATGAGTTATAAAGCAATAATTGAGTGCGTTGTGAAATCTAATTAGCTTGCACTAGAGTTTAACCTGGGTGAGTAATAAACCTGATATTAACTCCGGAGGCTAAATATTTTTATTATTATTATTATTATTATTTTTAAATCTGCTCGCTAATTTGCGTAATACGTGATCTCAGATCGCTAACTTGAAGGCTGCAGCCCTGCAAGTTTGGGGACGGAGTTTAAAAATCCCTAGATTTCTTCTGTAGCTCATTGGGAAGCTTGGGAAAGTGGCCACGCGATAAACATATGAATGGAAGCAGGACCTGTAAAATAATTACTCATCGGAGTTTTTTAAAGCCTGATATCAGGAAACAGGAAAAAAAAATGTAGTTTATGTGGGAAAAGGAGGGCTCACAATCCGCTCCTTGTTGTGTTAAAGGGGGTCTGGGGAACGAAGTCATTTTCTGGACTTTGTCCAGGTTCTGGGTCGTGACCTAAACTTCCTTTTATATATTATTGCTTTACACATTAAAAAAGAAAAAAAAGAAAAAAAAAAAGCCTTCTCCTCCCAACCCCCCCCCCCCTTCAACCACTCGTGCTGAGGTCCTGGGGTGACCCACGAGCATCCACTGGGGGGGTCCCGCGTGGGGCCGCTGCTCGTGGGGCTCTGTTTGGGGTCCGGGCGCATCTGGGGACGCCCCGTGGGTCCCCCACACAGCCCCTGGGCTGCGGCCGCCCCGAGGAGCGGAGCCGAAACCTCTCCTTTCTCCCCAAATCACTTTATTATGATGATGATTATTATTTTTAGCCTTCTGAGAAAACAATCGTCCGATCCTGTCGTAACTGTTTAATTTATTGCTATTTTCCAAATGTGAGGCCTGGCGTGTAAATTGCCTCCCAACGAGATAAACGCTCCTTCTTATCTCGATGCTGGGGAGATAGCCCCGTGCACAAGGAGGGCTCTGCACACAGCTCCCCAATAACAGCACTGATGGAAAGCAGATGCACAGGGATGCACACACACACTCGATTTGCTCCTGCCTCTTATTTATTTATTTTTTTTACACACACACACACACACACAGAAAGAAAAAGAAAAAAAAAATAGAAGAAAAACACAACAACTGGGTTCTAATGACTCGCAGAATATGCATGTGTTAGCCCTGTGCCTAGGAAAGCCACAGGGAGGTCAGGTCACAACCTGTGCTCTTTCAGCACAGACGTCTCTGATTTAAAGGGAAGTTATTGTATTTTAGCGTATCAGGAAAAAAAAAATGTCCAGACCCTATCAGGGAGTTTTCTTCTTGTAAGGGCCTTTAGGTTTAAAAAGAAGAAGAAGAGGAAGAAAAAAAAAAAAAAAAAAAGAGGGGGGAGTCGAGGGGGGGAAGAAAGAAAGAGAAAAGAAAAGAGGGGGGAAAAGAAACAGCTCAAATGAACAGAGAGATCACAGTTTGCATGGCTGCCTCTGAATAGGCTAAACTGACAAGATCAGTTTTAAAGGGCCACTTAAATCAGTTTCAAAGACTGAAGAAAAACGCGTTGTCTTCTCTGGGGGAGAATCTGTTGCTGGATCCGGGGCGCCATTCTCTGCGACTGGGCCGGTTTTTTAGCGTTATGATGATGATTTCCATCACTGCCGTCAGCACGCCTTCCCATCGCACGCTTAGGCTCCCCACGCTTCTTTTCCAAGTGGGGGAGATAGAGCGGCTCCCCCTCCCCTCGCCTCCCGCCCCGCCCCGGCCTTTCCCCGCACACCGGAGGTGGGGGGACCCGGGCAGCGCCCCCCAGCACACGGCCCCGCTCCTATTGCTGCGGAGCCCCTCCAGGAGGGAGAGGTGTGGAAAAGGACAGAGATTGGCCCTATGGGTGATACCCACGGAGACTGTCGGGGGGCGAGGTGATGGCGCACGATCCGCGCTTCTTTCTAGAGATTTAAAAAAAAAAAAAAAGAAAAAAGAAAAAAAAATCAAAATCAAAAAGAAAACTTTTTAATCTGATGATTGTTTTCTTTTTTTCTTTTCTTTCTTTTTTTTTTCCTTTCTTTTTTTTTTCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTAATACACTTTCTTCTAG
Seq C2 exon
ATGCCTGTGGTCTCTCTGATGTAGCCCATGTTGAAAGTTTACAGGAGAAGTCACAGTGTGCTTTGGAAGAGTATGTTAGGAGCCAGTATCCCAACCAGCCAACACGATTCGGGAAGCTATTACTACGTCTCCCCTCCCTTCGCACTGTCTCCTCTTCTGTCATAGAGCAATTGTTTTTCGTCCGTTTGGTAGGTAAAACCCCCATAGAAACCCTAATCAGGGATATGTTACTGTCTGGCAGCAGTTTTAACTGGCCTTACATGTCCATTCAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007000:ENSGALT00000011332:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(67.3=74.6)
A:
NA
C2:
PF0010425=Hormone_recep=PD(32.1=68.5)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]