BtaINT0103600 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003650 | NR4A2
Description
Bos taurus nuclear receptor subfamily 4, group A, member 2 (NR4A2), mRNA. [Source:RefSeq mRNA;Acc:NM_001076208]
Coordinates
chr2:40011367-40012838:+
Coord C1 exon
chr2:40011367-40011490
Coord A exon
chr2:40011491-40011972
Coord C2 exon
chr2:40011973-40012838
Length
482 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TTACCCTGTTTCATTTCCAGCCA
3' ss Score
10.31
Exon sequences
Seq C1 exon
GGAGGCGATCTGACAGGCTGGGCTCTCCACTGCTCTTCTAAAAATCTTGGAAACTTTGTCCTTCATTGAATTACGACACTGTCCACCTTTAATTTTCTCCAAAACGCCTGTAACTCGGCTGAAG
Seq A exon
GTTAGTGCCACTTCATTTCCCCCCCTCCCTTGAGTTCCTTAAACGTCAAGAAACAGGGCAATGCGAGCGATCTTTCCCCGCAAACCCTGTAACTTAAGTTTTTCCCCAACCCATCGCCTTCGGGAACAAGTTTCTCATTGTGCAATTCAACTTCATTTCTGGATTGAGCTTGCTGAACCCGAGCTTCAGAGGAAAGGCTCATGGGAACGGGAATGCTCCTGAAAAGGGTGAAGGGGGAGGCGTTGGAAATATCCGGGAATGGAGACCCTAATAACTTTCCAGTTCAGGGTCTTTATTGGGTCAGCCTTTCCTTGCTCCGCACTGTTCCGATCCGCAGTAATCGCGCTCTCCGCCGTTCCTCTCGCGCCCCTTCTTGCTCTCTGACCGCTGCGGGCTGCCGGTGTAGCTCCAGGTGTACCCGAGCCCGGGAGAAAGTGTTCACTTGACCAGGCTGAGTGTATATTACCCTGTTTCATTTCCAG
Seq C2 exon
CCATGCCTTGTGTTCAGGCGCAGTATGGGTCCTCGCCTCAAGGAGCCAGCCCCGCTTCTCAGAGCTACAGTTACCACTCTTCGGGAGAATACAGCTCCGATTTCTTAACTCCAGAGTTTGTCAAGTTTAGCATGGACCTCACCAACACTGAAATCACTGCCACCACTTCTCTCCCCAGCTTCAGTACCTTTATGGACAACTACAGCACAGGCTACGACGTCAAGCCACCTTGCTTGTACCAAATGCCCCTGTCCGGACAGCAGTCCTCCATTAAGGTAGAAGACATTCAGATGCACAACTACCAGCAACACAGCCACCTGCCCCCACAGTCCGAGGAGATGATGCCGCACTCCGGGTCCGTTTACTACAAGCCCTCCTCGCCCCCGACGCCCACCACCCCGGGCTTCCAGGTGCAGCACAGCCCCATGTGGGACGACCCAGGCTCCCTCCACAACTTCCACCAGAACTACGTGGCCACTACCCACATGATCGAACAGAGGAAAACGCCGGTCTCCCGCCTTTCCCTCTTCTCCTTTAAGCAGTCGCCCCCCGGAACCCCCGTGTCTAGCTGCCAGATGCGCTTCGATGGGCCCCTGCACGTCCCCATGAACCCGGAGCCAGCGGGCAGCCACCACGTGGTGGACGGGCAGACCTTCGCCGTGCCCAACCCCATCCGAAAGCCCGCGTCCATGGGCTTCCCTGGCCTGCAGATCGGCCACGCGTCGCAGCTGCTCGATACGCAGGTGCCCTCCCCGCCGTCGCGGGGCTCCCCCTCCAATGAAGGGCTGTGCGCTGTGTGCGGTGACAACGCGGCCTGCCAGCACTACGGCGTGCGCACCTGTGAGGGCTGCAAAGGGTTCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003650:ENSBTAT00000004758:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.507
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAAACGCCTGTAACTCGG
R:
TGGCTGTGTTGCTGGTAGTTG
Band lengths:
343-825
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]