BtaINT0106824 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017125 | PABPC4
Description
Bos taurus poly(A) binding protein, cytoplasmic 4 (inducible form) (PABPC4), mRNA. [Source:RefSeq mRNA;Acc:NM_001083724]
Coordinates
chr3:107096571-107097489:+
Coord C1 exon
chr3:107096571-107096673
Coord A exon
chr3:107096674-107097179
Coord C2 exon
chr3:107097180-107097489
Length
506 bp
Sequences
Splice sites
5' ss Seq
ACCGTATGT
5' ss Score
6.73
3' ss Seq
GTTGGCGCTTTGCTTTTCAGGAT
3' ss Score
9.99
Exon sequences
Seq C1 exon
GTGGATGAGGCTGTGGCGGTCCTTCAGGCTCATCATGCCAAGAAAGAAGCTGCTCAGAAGGTGGGCGCTGTTGCTGCTGCTACCTCTTAGACAAGGACGAACC
Seq A exon
GTATGTTTGGCTATTTTTCTTTTCTGCAATGATTTTAACTCCTGAATATCCCCCTGAAAGATAAACATGGGCAGAGGCAGGGGAAAAGAGCCCATGGTGAGGGCCGGGGCTGGAGTGATGGTAGGGCTTGTCCCGCTTGTTCACAGCCTGAGCCCTGTCACTTGGAGTTGAAGTAGGGATGCCCAGGAAAGGTCAGAGGTGGGGCTTTCCGTGCAGTAGCCACAGAGTCACTGGTTCTTAACCAGGGGTGCCTCCTCAGAGGACATGAGACATTTTGGTTGTCAAAACTGGGAATGTGTTACTGGTATCTAATTGAGTAGCGGGCAGGGATGCAGCTAAATAGCCTAAGATACACAGGAATATCCCCAACAGAATTATCTGGGCCAGAATGTCAGTGGGCACCAAGGCTGAGAAACCCTACTCTGCTGTGTTTCTGTAAGAGATTTCTGTGAGTCTCTGAGGTTTTTTTGATAGTGTATTTATTGTGTTGGCGCTTTGCTTTTCAG
Seq C2 exon
GATTCAAAAGCCAAATAAACCCTCATGGAGTTCAGCTCAAGGTTTGAAGACTTCCTAGCTTGTCCTATGGACCTCAACACCAAGAACCACAATTGCAAATTTAATAGGTCATTTTGTATCAAAAGGTCAATTATGAAGCACCTAGAATTTTTCAATTTAAAGAATATATTCTCTGGGTTCTGATGTGGCCCAGACAGTGTTAACTTTTTTTTCTATTGTGGGTTTTGCTTTTTTCCCCCCAGAAATTGGTTTTATTTGATGTACCCAAGTCTTAAGTTTCTCAATAAAGAAAAAAATCTCCATAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017125:ENSBTAT00000022761:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.448 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0065813=PABP=PD(9.7=23.3)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCAAGAAAGAAGCTGCTCA
R:
TGAGAAACTTAAGACTTGGGTACA
Band lengths:
351-857
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]