BtaINT0103630 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040585 | NR6A1
Description
nuclear receptor subfamily 6, group A, member 1 [Source:HGNC Symbol;Acc:HGNC:7985]
Coordinates
chr11:95553251-95555191:-
Coord C1 exon
chr11:95555039-95555191
Coord A exon
chr11:95553323-95555038
Coord C2 exon
chr11:95553251-95553322
Length
1716 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TCTTTTTCCACCTTTCCCAGGAA
3' ss Score
9.41
Exon sequences
Seq C1 exon
ATATCAGGGGTCTGACCAGTGCCTCTCAGCTGGAACAGTTGAACAAACGATATTGGTACATTTGCCAGGATTTCACTGAATATAAATATACACATCAGCCGAACCGTTTTCCTGACCTCATGATGTGCTTACCTGAGATTCGCTATATTGCAG
Seq A exon
GTAACGGGTCCTGGGCTTCCAGTCCTTCCTTGGTTTTCTTAACTTGTGAAGGGAATGAGGAAAGTGTTTTCAGGGATGCTGATGCCAGGCCCATCACCAGCTGAATAAAAGAAGTACTAGCCCTGCCCTCAGAAAAATTTACATTATAATGAGAAGTTTATTTTTTCTTTGTAGGGAAGAGAATCTAACATTTCCTAGGCTCCTGTAAAGTGCAGGGTACTTGGTGGCCTGTTACTCAACTTCAGAACAATTTCTGCAAGACTTGTGGTTGACCACTCTATGGATGGGGAAACAGGCTCAAAGTTTTTCATATTAACTTCATTTCCTGAATTATATACCTTAAAAGGGTGGGTTTTACAGCATGTGAACTAACTATATCTCAATTTTTAAAATTAATTTTATTGAGTAGAATTGCCTATAGGTTTTTGAGGATCTTTCACTTAAAGTGGTGTCTTTAAAATAATTGTCAAAGATCCTGTGTTCACAAAGCAACTTCTGTTGTCGTTGTTTTGTGATCTTGACCCCCTTCTGAGCTTCTTAACATTTAAATAAGTCCATTTCAACATAAAATCCTGGCTTTTACTGTTGTTGTTTTACTTCGTTTGGTAAAGAATCTTGTTTACTGTTATCTTGCACATACTGAGGGGCAACTCAGAATTGTGATGTCTGGGCTAAGATTGTTTCTGTAAAATTAAGGAATGTATTTTTGAAGGGAAAAAATGTTCAATCTATTAAAATCAATTTTTAACTTTTGGGCCACGGAATAGTCTAGGAGATATGACCTGGACCTAAATAAACTGGTAGAATTTTAGGAGTGTTTTGGTAGTTTATGTCTCAGCATTTTCAAAACTATGTTCTTCCAAACAAGATATGAATCAGGTGCTTTATGAAATAGAGAGAAGTTAGTAATTATACCCCACTCTCCCCCACAGAACTGACAGAGTTGTCAACCCTTTGACTTACATGGGAAGCTTTTAATAAATACCCATGCTTGGGTTGCACCTCTAGAGATTCTGACTTAATTGATAATGGAGTGGAGCCTGGTCATCAGTATTTAAAAAAAAAAAAAACTCCCCGGTAACTCTAGTGCTGTGTCAGGGAGAACTGTAGCCTCAGATATTTACAAAGTATATTAGCACACTGCATGCTCTTAGAAGTCCTCCAGCTTAAAACAAGCAAACCTATTTTAACCCTGAATTTCTCAATTTATCTTCCCCTGTAAACTCCACCTCTTTCCTCAGTACATTTTATTCCCATTATACCATTCTGAAGAGCAGTGTTTCATAGAATGCTAGTTAAAGATTCTGCTAGGAAATAAAACAGGATATAAGTTTCTCTAAGAGGACATCTAAGAATACTTCTCAGTTTCAGAATCCTCATTTGTAAAATGGGTATAAAAAGTTATAATATCTATCATACAGAAATATTGTGAGAATTAAATGAGATAATGTATTTAAACACTTACCACAGAGTTCAGTATTCTTTGGATAGTAGCCAGAATTATAGCTTGCACCATTACTAGACTCCCTAGGGCACCGAAATGGGGCTGCATATTAGAATGTTAGCCCAGTCTGTTTTACCTTTGTAATAGTCCTGGCACTTTCCACACCCCAGTCACTCAAAAAGGCAGTGTTCTTCTTTCCCCAGCCCAAGAGGAGGCAAACACACCATTTCACTGGCTGCCAAAGCTGACTCTTCTTTTTCCACCTTTCCCAG
Seq C2 exon
GAAAGATGGTGAATGTTCCCCTGGAGCAGCTGCCCCTCCTCTTTAAGGTGGTGCTGCATTCCTGCAAGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040585:ENSBTAT00000065207:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(26.4=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(10.7=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGGGTCTGACCAGTGC
R:
TTGTCTTGCAGGAATGCAGCA
Band lengths:
222-1938
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development