BtaINT0103597 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000507 | NR4A1
Description
Bos taurus nuclear receptor subfamily 4, group A, member 1 (NR4A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075911]
Coordinates
chr5:27982314-27985786:-
Coord C1 exon
chr5:27985530-27985786
Coord A exon
chr5:27982802-27985529
Coord C2 exon
chr5:27982314-27982801
Length
2728 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
TTGGTCTCTTCCCTCTCCAGAGA
3' ss Score
10.14
Exon sequences
Seq C1 exon
CTGGCCGCCTCCCGCCGGAACCGCGCCGCCCCCCGCGCCCTTGTATGGCCAAAGCTCGCCGGGCCGCGTGCGTCAGTGGCGCCTCCGCCCCTCCCCGTGCGTCACGGAGCGCTTAAGAGCAGGGTCCGGCGCGGCCGGGAGTCCCAGTGGTGGAGGCTGCGAAAGTTGGGGGAGTGTGCAAGACAGCGGGAGCGTACGCGGGACCAGGCTGCGACTTGGGGCGCCGGTCCCGGGCAGGGGGAGCAGAAGCCAGCCGG
Seq A exon
GTAGGTGCCCCCTGGAAAGCGTGCATCTCAGCGGGGCTCTCCGTTTTGGTTTTGTGGCAGGGAGGGGCGGGGGGTGTTGCATGAAGGAGATAAGTGTTTGCGAGGACCGAAAGAATGTTTTGGGGTTAGCATGAAGGAGGGCGAGTATAGGCTGCAACTCTGGCTGGGGGGTTAGGGGTTGGAACGGGATGAAGACCCAGATGGGACTGGAGTCTGCTGGGTGTTGTGTGTGTGTGTTGGGGAGGCGGGGGTCTGTGCAAGGTGGAAGCCACAGAGTTCAGTTGGCGCCTGCAGTGGGGACTTGTTCAGTAGAGCTGTCTAGAGTTCAGTCTCCCAGGCTCCCTTAGTTGGCACAGGCTCCCAGGAGTTAGTTGCTGATGGGGGTCTCAGTGCAGTGCGGGGAAAGGTGCACAGAGTTTTGGGCTGCTGGGATCCGACTCCTTCCAGGATTGGATTTCCAAAAGGGTCTCCTCCTCAGCTTGTCAGCTCACTCCTATACCCCTAGTTGTTTTCTTAACACTCATTCTTAATGCTGTGGGTTAGTTTCTAGGGTTCCCCAGTTGGAAGTTTCTGCCTGAACTATCTTAGGAGAGGTCTGGATTGTCCGAGCAAATGGCTTAACATTGGTGACTGAACTGTGGAGGGGGTGCTGGTGCGTGTTGGAATAAAAGAGGCTTCTTAGGGCAGAGCACAGTCTCTGGAAGCGTAGGGAAGATTGTTTTTTAATGTAGCTTGAATCTGTGTGTGTGTGAGAGAGAGAGAGAGAGGTGGAAAGCTTCGTCCTTGGGGATCCTTGATTGAAGTTGCTGATGGAGTTTCTGGTGGGGTACCACCTAGAGAATCCCCTTCCCCAGTCTCTGTCGGATCAGACAGGTAGGGTGCAGCCTGAGGCTTGTTTAGCACAACAGGTGCAAACCACATTGTTGCCAAGACCTGCCTGTAGCCGGATTCTCCTTGCTCCTTCCTTCAACCCCGCCTCTTCCTTCTCCGTGTGTCCCTCCCAGAGGCTGGATGGAGGTCCATATCTTGTGTCATTAAGTACCTGCATGAAGGCAGGAGTGGGGGTAGTTTGGTGGGGGTTGATCCGGATGTGGGACTTCCAAGTGGAGAAACGGGATTTGAATAAGGCTGGAATGCCCAGCCCAGTCCTGCGTAGCTGCTGCCTCTTTTACTCCACCCCAAAGCCTTCCCTGCCAGGCTGTCTTAGCGCAGACAGACGGGGCCAGCCTTATCGCTTGCAGGTACTTTATGCCTATGGATGGGCGCCACTGGTTGGTGGGGCCAAAGTTTCTAGGGGCTCTGTTGTCTGGATTGGTTGTGGGAGTGTCAGGACGGGGGTGGAGCTGCCCTGTCCAGGGCCCAAGGAGGCAGGAGAAAGCCTATTACGGGAGAACTCCCCAGGCTCTTGGCCAGGAGGTAATGCCAGCTTTTGCCCCCTCCTGCTGTCCCCCTTGGTCATGGCACGCCCTGTTTCAGCTTGCTTTCTTCCCCAGCCTCCCTCCCTGACTGATGAGGCTAGAGTCACGGAGACAAGGCAAGGAGGTAGGATGAGAACCTCCTCTCTGTGTTAGCTTTTGACTTGTCTGTGAACTTAAAGATCCCCCCTGAATGATTCTCTCTGCTCCTTCAGATTCCTCCAGATTTGAGGGGGTGTAAGCCCCCTTTGTCTGAGCTCCTGGGTTCTTCAGGGCACAGAACTGCTTAGTGGAGGGACCCAGACTTCCATCACCCCCAGCAGACTTCTCCTCTGCCCTACACAGCCACCTCAGTCTGCTGGACTCAGTGCTCTCGTAAAAATAATAGGGGGAGATGCTGCGGGAAAGCAGAGAAGTTCCTTTTCAGGACTCGAAGTCCAGGGGCTGCTCTCCCCGCCACACTCCGCCCTCCAGCATATGGCCTTTTAAAGGTCTGGATCCCAGTTACCTGATCCCTTGGGGTACTGGGGAAGGAGGTCGGGCTCCTTTGCTCTTTCCTTCTGAGAGCATCCCAGGCAATGTAGAGTGGGTGCCCATCCCCAGATGGCAGGACCGGGGTGCGCGTGGGATCTACAGCCTTTGCTCAGTATGTAGGGTGAGGGTGGGGTTGGGGATGGGGGTAGGGAGAGGCTAATTGCTGTCTTGGCTGCTTTCATAGGCAACTGGGCCTTCACTCTCAGCTCCTCTTCCATTTGCAGGATGTTGTTCTTCAGCTCAGGCACTGTTGGGGGAGGACAGGAGGGGGTTTTGCAGAGGCTGAGCCATGCCTGGGAATATTCCCAGAAGTGCCAGGTTGGAGGAACGGCGTATCTGCTCCCAGGACTGGGCTCTGGCTTTGCCTGGCTGCCTCTCCCACCCACCCTTCTCCCAGCCCCCACCCGTGCCTTACCCAGTTAGGGAGAGGCAGGGGGCTGGACGAACACAGCTTTCCCCTGTTCCAGCAGAGAAATGCTGGCTACATGCCCTCCCTAGGGTTCCCAGGCTGCCCGGGGTGTGGTTGGCCTTCCGACTTGAGCCCACCCTTGCTGGGACCTTGCCTAGGGGCTTTGTGACATGGACATTGAGGTGGTGCTCTGACCAGGTACCAAGGATTCCTGGGTTCTGTGGTGGGCCATGGCCTTAACGCCTCAGTGTCCCATGTCTGGCTGGGAGTCCTGCCTCCTGGCCGCTCAAGGACCTATACTTAGAGGTCAGGCTTCAGGCCTCTCTTACTGACTTCCCTCTCCCCCCACTTTGGTCTCTTCCCTCTCCAG
Seq C2 exon
AGATGCCCTGTATCCAAGCCCAGTATGGGACACCAGCACCAAGCCCAGGACCCCGTGACCACCTGGCAGGCGACCTCCTGACCCCTGAGCTCAGCAAGCCCACCATGGACCTGGCCAGCCCCGAGGCAGCCCCCGCTGTCCCTACCGCCTTGCCCAGCTTCAGCACCTTCATGGACGGCTACACAGGGGAGTTTGACACCTTCCTCTACCAACTGTCAGGCACAGCCCAGCCGTGCTCCTCTGCCTCCTCCTCGGCCTCCTCCACGTCCTCATCGTCAGCCACCTCCCCAGCCTCTGCTTCCTTCAAGTTCGAGGACTTCCAGGTGTACGGCTGCTACCCTGGCACGCTGAGTGGCCCTCTGGACGAGACCCTGTCCTCCAGCGGCTCTGACTACTATGGCAGTCCCTGCTCTGCACCGTCACCATCCACGCCCAGCTTCCAGCCTCCTCAGCTCTCTCCCTGGGATGGCTCCTTTGGCCCCTTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000507:ENSBTAT00000046887:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.525
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
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:
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]