BtaINT0118650 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001821 | PRRC2C
Description
Bos taurus proline-rich coiled-coil 2C (PRRC2C), mRNA. [Source:RefSeq mRNA;Acc:NM_001206655]
Coordinates
chr16:39931190-39932829:+
Coord C1 exon
chr16:39931190-39931297
Coord A exon
chr16:39931298-39932610
Coord C2 exon
chr16:39932611-39932829
Length
1313 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TCTGTTTGCTTATTTTCTAGGTT
3' ss Score
10.59
Exon sequences
Seq C1 exon
GCTAGAGCGAATCTTACCCAGGCTTCAAATCTTTATTCTGGACAAGTACAACAGCCTGGTCAGACAAATTTTTATAACACTGCCCAGTCACCAAGTGCTCTCCAGCAG
Seq A exon
GTAAACTATGGCATGGTAAATTTCCTCAATTTTCTTTATTATTATTGTTGTTGCTGTTGCTTTTGTTGTTGTTGGGGGATTAAAATAGAACCAAGATGGGGAGATGGTCCAGTGGCCTCAGAGTTTTTTCCTGAGGAATTTAGGAATTCTCTGGGGTCCACTGGTAGTGGGACATGTTTCAGTCTTACACCACCCCTCTTCTCACCCTCACTTCCCATAAAATCAGTAATGCTCTTTACCTCTTTTTAAAGAGGACTTCTTTTTATTTGTTTATTAATAAATATTTATTTTGTATCAGTTGCAGCACACAAGGTCTTTTTTGTGGCATACAAGATCTGTAGTTTGGCATGTAAGATCTAGTTCCCTGACCAGGTGTCAAACCTAGGCCCCCTGCATTGGGAGCATGGAGTCTTAGCCACTGGTTCACCAGAGAAGTCCCTAAAATGGATTTTTATATAATCAATTATTTTAACAAAAGAGTCCACAAGTCTTGTGGACACAATGGAAAGTCCACAATGGAAAACTATTGTCCAGTACATGCAGTTACATCTAAGTGTGATAAATGTTTTACCCATCCATGCTAGAGGTGAAGGAAGACCCTGAAGACCACCCACACCAGTTAATATAATACATAGGACTGTGTAGCAGAGTATGATAGAGTAAAAATAACAAAAAAATTTCTTAAGTATATGAATGTAATAATAATTTTCAGTGAAATGTATATGTTTATGAAACTGCCTTCTGACAATCTCATAAATCAGCTTACTCTTTAAAAAGTTGGTGGAGGGCTGGAGGAGAGAGGCAAGCCGTTAGTCATCTTCTCATAGCTATTTTTGGTGGATATTTTAGGGGGTGAAAATTAAGAAAATATCACCGTATTGACATTCAAATTAAATACTATTTGTATGACACCGGAAAGATTTTTTTTTGGTCAAAGCTCATTTTGACCACACCTTTAAAATAATATAAAAAATATCTATTGTAAAAATGAAAGTTGTAACTACTTTCTTAAAGTGTATGTTCATGATTTTATTGTATTCTGGGGTTATTAAGACATACTGTGGATTCAAAGACAGTCATAATTATTTCATACAGAGTTTCTCTACTGCTAATCTGTTTTATTGTTGCACATTTAATAAAAGAATGGAGGTAGTCACTAATCAAGATATTTACATGTGAAATATATTAATAGATTGAAGTATTCTGTTTAAAATCTTACTCAGAAGTATTTGAAGAGTCATGTATATAGTTAAAGGGATATACATACAACAGATTAAGCAAATTGCTACAGTTTCTGTTTGCTTATTTTCTAG
Seq C2 exon
GTTACAGTACCTTTACCAGCATCCCAACTTTCTTTGCCTAATTTTGGATCTACAGGGCAGCCTTTAATTGCTCTGCCTCAGACTCTTCAGCCCCCATTACAGCATACTGCCCCACAAGCACAGGCCCAGAGCATGAGTCGTACTGCACAAGTAAGCCAGCCTTTCAGGGGATTGATCCCTGCTGGAACACAGCATAGCATGATCGCAACCACAGGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001821:ENSBTAT00000002380:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.556 A=NA C2=0.863
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTAGAGCGAATCTTACCCAGG
R:
TTTCCTGTGGTTGCGATCATG
Band lengths:
326-1639
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development