BtaINT0038631 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007480 | CIRBP
Description
Bos taurus cold inducible RNA binding protein (CIRBP), mRNA. [Source:RefSeq mRNA;Acc:NM_001034278]
Coordinates
chr7:45354486-45355763:+
Coord C1 exon
chr7:45354486-45354563
Coord A exon
chr7:45354564-45355654
Coord C2 exon
chr7:45355655-45355763
Length
1091 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
TTCATTGGTGTTTGCCTCAGGCC
3' ss Score
8.04
Exon sequences
Seq C1 exon
TCACTCGCGCGTTAGGAGGCTCTGGTCGTTTTGCTCTCCTGTCTTCCCGCCTGCGCCAGGGACCTGCCCAACTCAGTG
Seq A exon
GTGAGGGCCCTGGCGGCACCGGCTCCACGGGCCCGGGGCGGCGGGCGGCCTGCGGCTAGATGGACGAGGCGGGGCGGCGGCGGCACGCCCTTGGGCGGGGGCGGTGCCAGGGCGGGCACCCCGTGGTGGGTGGAGGCGGGTGGAGTCCGCCCCGCCAGCGGCGAGGGGCAGCGTAGACTGGGTAGAGTCGTGGCCGGACGGCATTCCCTGTGGGCCAGGCCTGCCGCGAGCGTGACATCTCCGTAAAATGGCGGCCGCGAGCGCGAGACAGCGCCTATCGAAATGGCGGGAGCGCCGATACCCGGATGGTGTGGCGCAGGACGCGCGCGGGGGCGCATGCGCATGTTGGGCGTGGCCGGGCCAGGGCTCCTCCCCGCCTTCCTATTGGTGTTCTGCGAGGGCAACACAGCCCCGGTGCTAGCCACGGCTTAAGTTTGGGTCCTAGTTTCGCGGCTGCAGGTCGCCTTCTGGCCTGTTTCTGGCCCCTCAGCGGAAGCCTGTGTTCCATAAAGGGTCAATCTAAGCACCGCCCCACAATCCCGCCCTGCGTTGGCATCCCAGCGCAGAACCCCCCGCGCCCCCTGCCACTCCCTGCACAGTACCCTCCAGTGGACCGAGCACTTTGCCATGATGGTCTAGTTAGGACTTAATCCTCCGGTGTTTGCAAAGTGCGGAAGCCAGGCTGCACTCAGCCCGTGGCAATGGTGGTCGATGCCCTCTTTAAGGGTCCAGTGTTAAACCTCCTGTGAGGCTGTTAACTAGCCTGGAGTTTTGGGGCCCCATGGTCAAGTAGCACTGAGGAGCGAGGCAGAACCGTGGTGTGGACCCAGCTCTCGGAGCTCCGGGTTTTGACTGAGAGGGGTGGACTTGCCCCACGTACAGAGTAGAGGCAAGGGGCCCGAGTGATAAAGGAATTAAGGGCTTGTTTGAGATGAAGTACTGGGTGTGGGCTTGGGACGGTTAAAGGGCAGCAAAATAATTTCTCACGGTTTCCCCCATGAGCATATGTTACTTGTATAAAGTAAAATAGGGAGGGGTGAGTTTGGAAGCCCCTGCCCGACCTCAGAGTATTTCATTGGTGTTTGCCTCAG
Seq C2 exon
GCCACCATGGCATCAGATGAGGGCAAGCTTTTCGTCGGAGGGCTGAGTTTTGACACCAATGAGCAGTCACTGGAGCAGGTCTTCTCAAAGTATGGACAGATCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007480:ENSBTAT00000004477:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PU(38.0=77.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACTCGCGCGTTAGGAGG
R:
TCAGAGATCTGTCCATACTTTGAGA
Band lengths:
185-1276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]