BtaINT0118637 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001821 | PRRC2C
Description
Bos taurus proline-rich coiled-coil 2C (PRRC2C), mRNA. [Source:RefSeq mRNA;Acc:NM_001206655]
Coordinates
chr16:39871557-39872791:+
Coord C1 exon
chr16:39871557-39871722
Coord A exon
chr16:39871723-39872619
Coord C2 exon
chr16:39872620-39872791
Length
897 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTACTGATCTTTAGTTGCAGCTC
3' ss Score
3.55
Exon sequences
Seq C1 exon
ACTGATTTTAAGGGGTGTGGCAGAAGGTTCTAGACTCGATGAGTTTCCACCGAAATGTCGGAGAAGTCAGGCCAGAGCACAAAAGCAAAGGATGGGAAAAAGTATGCGACACTCAGTTTATTTAATACTTACAAGGGTAAATCATTAGAAACTCAGAAAACCACAG
Seq A exon
GTGAGTAAAATCAAGTGGCTTTTATGTTTTTTATAATTTTCATGGTTTCATTTTATTACTCTAAATCACATACTAGAGCTATTGCTGTTAGGATCTAGGTAAACCTGTGTTAAAGCAGCCCTGTTTGCATTGTGCTTTTTATGTACATACACATCTATGAGGGGATATGAAGTTTTTAAAGTTAAAAGTTTATAAATGTTTTAAAATGTTTATTTTTTTCCAGTTTGTTGTCAGCAGAAAATAAGTTAAACTGTATGGTTCCAAAGGGGAGACTTGGTTAATGAGATTAATAGGTATAAAGCTAAAAATATTTTAATCAGATGTAGTTGATTTATAGTGTTTGTTAATTTGTGCCATATAGCAAAGTGATTCAGTTATACATATATATACATTTTTATATTCATTTTCCATTATGATTTATCACAGTATATTGAGTACAGTAGGACTTTGTTTATCCATTCTGTATATACTAGTTTGCATTTGCTGATCCCAAACTCCCATTTTACCCACTTCCCCTGGGCAACCACAGGTCTGTCCTATATGTCTGTGAGATTGTTTTGTATCTTATTTATTGTTTCACGTATGAAGTTTTGAGTTTAAAATCAGTTCCTTGGGAAAAAGTACAAAACAGCACTGTCAGTGTTTTCTTTTTTGTAGTTTATAGAGTTAGTTTAGCTGTTAGAATTTTTCAAGCATCTGTTCAGTGACTTGATAGTTAATTTGAATACAACTTCTTCCTTGGGTCATGTTGCAGGTTTGTGGCTTAGTTTTAAATTTTTTTTCTTAAAATATTAGAAAATAATAGCTCAAGATTCCATTAATTCCTATTGTCTTTTGTGTTGTTTTAAGAATAAAATAGTTACTAAGAAAGTTGATGTTACTGATCTTTAGTTGCAG
Seq C2 exon
CTCGCCATGGATTACAGAGTCTTGGAAAAGTTGGTATTTCTCGGCGTATGCCTCCACCTGCTAACCTCCCAAGTCTCAAAGCAGAAAACAAAGGCAATGATCCTAATGTGAACATTGTACCTAAAGACGGCACAGGATGGGCTTCAAAACAAGAGCAACACGAAGAAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001821:ENSBTAT00000002380:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.974 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF070016=BAT2_N=PU(22.6=97.4)
A:
NA
C2:
PF070016=BAT2_N=FE(34.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGATTTTAAGGGGTGTGGCA
R:
TCTTCTTCGTGTTGCTCTTGT
Band lengths:
335-1232
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development