BtaINT0038636 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007480 | CIRBP
Description
Bos taurus cold inducible RNA binding protein (CIRBP), mRNA. [Source:RefSeq mRNA;Acc:NM_001034278]
Coordinates
chr7:45356430-45359172:+
Coord C1 exon
chr7:45356430-45358869
Coord A exon
chr7:45358870-45359026
Coord C2 exon
chr7:45359027-45359172
Length
157 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CCCTCCTGTCTTTCCAGCAGATG
3' ss Score
9.97
Exon sequences
Seq C1 exon
CCGGAGTCAGGGTGGCGGGTACGACCGGAGCTCTGGCGGGTCCTACAGAGATAGCTACGACAGTTATGGTAAGTGGCGCTCCAAGGGCTGGTGGTGGGAGTTCAGTGCGCCTCAGTGCACTCTGCCAGCCTCGATCAGAGCTGGTTACTCTGCTGACCCTGTAAGGGACAAGATTGTCCTCTCATGTCTCGGTGCCAGCAGCCACTTCTGACCAAGGAGAAAAGGGAGATCCAGGGCTTCCGAGCAGAGTGGGCAGGCAGCGTCCGTGCGTGTGGGCCACGGCCACCCTCGGCTATGGGGGGGTTGGTTGCTCCTGAGGCTGCAGGGCTGGGCCCCGAGGGCCGGGCCAGGCGTGGACTGCTGCCTCTTGCCGTCTGCTTCTGCGCCTTTACACTGTGCCTGCTTCTTGTTCTCAGCTACACACAACGAGTAAAAATCCTTCCTGATCGAGATCGTCCTTCCAATGGCTGTGTGTTTAAGGACTTGGGGAGCGCCGCTGCATCGTTAGTGTGTAGTGACCACGCCTCCTTGTGCCCACTTCTGTAGTCTTGTTGGTTCTGATCTTGTCAAACACAGCCTGACTGCTTCTGACCCCCAAATGGCCTCACTGCTGCCCTTTGCTTTTTAAGGAAGTGCTTTCTGTTTTTAAGGGTTTTTAAATCGTTTGGAAACGCACTTCTGGTTTTACTTTTAACCTTTTTACCACTAGCCAAGAGATTTCTTAGAAAATAACTGGGGGTTATTTTGTTTTTGGTTGTGTTGCTATTTTCGTTTCTTTTCAGCGGGGTCAACCCCGTGAGGTTGCTCTTTTTTGAGGTTGAACGAACTCTGGATCCGCTCTCTTTGTCGGAAGCTGAGCAAGCTGTGGCTTTTTTCCAACTTGGTGTAACATTTCTGAGTGTAGCGTGGTCAGACTGTGCAGGAGGCAGTGGAGGTGCCCGGGCTGCCCGCCTGTCCTGGGCGACCCACAGTCCCCAAGAGGTTCTTGACAATGTGTGTTTATATTGTCCTTTTTTACTGGAAGTCATACACATATGCCATCACTGTTGTATTTGAAGTGGTTGAGGAATCCTTGTATGCCGTTTTCTTTGGCTTCACGAAGCTGATTAAAAGACTGTCTGAATGAACCTCGCTCTGAGCATCTCCCTTTGATCGCACCACACGCGTCCTGCTGCCAGCTTGAGGCAGGCAGAGTAGAGCAGAGCTGGCAGCTAGAGGACTAGGGCTGCCATCCTGCCTGCAGCTCCCAGGGCTAGAGGAGGAAGGTAGAGCCAGTGATGCTGGCTGGGCCCCTGTGACCACTGACTGCCCCCACCCAGTTAGGCGAGCAGGTGGGTGATGGGAGTGGGCTCTCGGACTGCAGGACAGCCCCGGGATTCTTCTGGCCGTGGCAGCTGGAGGGCTCGATGGGCGGGCAGCCTAGCAGGGACAGTGGACATGGGGGCGCCCAACGCTGACCCTGAGCCCCTTAATCTAGAATCAGGCCAGAGAGCGAGCGGATGCAGACAGTGTCCCTGGGTGACCACAGACTGACTGGCTCATTAGCTAGCTCTGCTGTTGCTTTACAAGTTCTGAGCATTCTCTGCTAGCCTATGGAAGCTGCAGCCCCTCGGAGGACAGAAGTGTTGTGCGCCCAACAGAACCCTCTGAGACGCAAGCCGCTCCCTGGGCTAGCTCATATGTGGAGATAGTCCTGTCACCGAGGTAACTCCTTTTGCTCGTCCGCATTCCTCTTCTCTCGGGCGCTCATATGGAAGCCATATTACCCGGGGAATGTTCCTTTGACTTTTTTGTTTTTCTATTTTTTTTCCTTTTTTTTTTTTTTAAATAAAAACAAGGTGGAACCAAAGGCAGGCCCCGGCCATTTGCCCTTCCCCACCTGCAGCCAGGTGAGCAGCCTGGGCAGTTGAGTTTCACCAGTAGGTTCCACCCGCTAGTAGGATTGGAGACCACCAAACGCCCTGCCTTTTGGAATTTTTTGTTCATCAATTGACTGTCTTTTCCAGACCTCTTTAAGTCACACTCCTAACTAGTTCTCTATGGTGTCTGCTGCTGCCATGACATTTTTCCCAGAGCTTGTGCCGTTTTCTAAGCAGCTCCGTCCCAAATAGGTGGCTGGCTCTGCTTAAGAGTGGAAGGTAGCCTGGCCCACCTGAAAGGCTCAGGCCTGCCCATGGTGGGGCCTCAGGTTGGCCCCGATGACTAGCTTGAGACCCTCCCAGGAGCTGTGGATTGTTCTGGGGGGAGGCAGGGAGGGGAGCTCAGCTCTGCCAGGGGTAAGGGCTAACATTCGTTTGCTTTGGCAGGTTGAATGGAAGTCAGTGTGACCCGGAGGAAGTGTGGCCTGAGAACAGTGTTGACCTGGGGTCCCTGTCCCAGGAGGGACTCTACCCAGGATCGAGCCAGAGGCACGGATGCCTGCCCTCGCAGCCCGTCGCCT
Seq A exon
GTAAGTGCTTCCCGGGGCGGGAGGCATGTGGCCCTTTGGCCCAGGCCCTTGCAGTGGGTTCTCCCCTCCTGGCAGCGTGATCCACTGGGGACAGCATCTTCACTTCTTGCCGGAGTAGCCCTTGTGCTCCCCCCAATCCCTCCTGTCTTTCCAGCAG
Seq C2 exon
ATGTTTTACTGGCAAGGTTGGGGCACGGGGTTCAAGGTGCTCCAGGAGGACAGGCCTGTGGTGCTGGCATGGCGGTGTGTCCTCACCGGCGATGTGACAAGAAAGCGTGGAAGTCACGTTTGAATAAAGGGATGGTGTGTCCACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007480:ENSBTAT00000004477:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GAGCTGTGGATTGTTCTGGGG
R:
GCCCCAACCTTGCCAGTAAAA
Band lengths:
242-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]