GgaINT0035885 @ galGal4
Intron Retention
Gene
ENSGALG00000003290 | PRRC2C
Description
proline-rich coiled-coil 2C [Source:HGNC Symbol;Acc:HGNC:24903]
Coordinates
chr8:4764004-4765367:-
Coord C1 exon
chr8:4765200-4765367
Coord A exon
chr8:4764182-4765199
Coord C2 exon
chr8:4764004-4764181
Length
1018 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CTTTTTGTTTTGGCATGCAGTTG
3' ss Score
6.46
Exon sequences
Seq C1 exon
GCTGATTTTGAGGAGTGAGCGGGCGGTACCAGACTCGATGAGTTTCCATCGAAATGTCGGAAAAGTCAGGCCAGAGTACAAAAGCAAAGGATGGAAAAACGAAGTACGCAACGCTCAGTCTCTTTAATACTTACAAAGGAAAGTCACTGGAAACTCAGAAAACCACAG
Seq A exon
GTAAATTAAACTGACTTCGTTTATGCATTTTGTTTCATCTTCACTGTTGTACAGCTAATTAAGAGGGCAATATAATCGTTAACCACAGCAAGGTTTTTGGGCTGCTTTATACAACAGCTAAATGGAAGAATTGTGGGAAAACAGTTTTGATTTCAGTTGCTGGTTACCTGTAAACTTCAAGTTCAGGGAGAGACAGCATTTTCCGTTCAGTAGAATGCAAGTAAATAACTGTTTTATAGTTGCAGTTTCCATATTAGTGTATGACATGCTATTCCGCAGCTGTGCTTTTTGTTGTATTTCTGAAGACAACAGCACTTATACCGCTTGAGTATATTTTGAGATCTTTAGTGTATACATTGGCTCCTTGCTTAAGTTTACTGTAATGTAATGATCAGAGGTTGAAAATGAGATGCTTGTTATTATAGAACACAGTGGAGAATCTTGTTCCTCTGAACTGATTAGTTGGTAGGTTGAATGTCCAGTGCAGTGTGTTGGCTTCATACTGCTTTTCATAATTGTGATCTGGAGTAACCAAACTTTATAGGAATGCTTCTGTATGAGCAGCATCTGCCAACTGAGACTGGCAGAAAAAATGAGATAGACCCATGTGGGTATTCCTGGACCCATTAAAGCATGATAAACTTCCGAGAGGAGTGAGAAAATAATATTTGACAACATCCTAAAAGGTAGCAAGGCATCAACATCATACTTAAAATGTCTTCTCCAACGTTCTGTGAGAGAGTATTGTATATAAAGGAGAGTGAACATATATGCTGTTTTGCTTCTGGAATAAGTTAACCATAGCGACTCAGTATTCAAAGCACTCAAGTTCTCCTGAATCAAGTATTTGTAATTCCCTTTTTTAAAAATTTAACAATGAAAAAAAACCCTGAATTTCTAATTCTTATATTCTTAAACTTTTTTTTTAAACAAACATTTTCACTGATTTCTGCAGCTCTGCAGGAACTCTGCCTGCTACACAGCATTGCTAACTTGCACTTTTTGTTTTGGCATGCAG
Seq C2 exon
TTGCCACACGCCATGGATTACAAAGTCTTGGAAAAGTTGCTATTTCGAGGAGGATGCCTCCCCCAGCTAACCTCCCTAGTCTCAAAGCAGAGAACAAAGGCAATGATCCCAATGTGAACATTGTGCCTAAGGATGGCACAGGATGGGCTTCAAAACAAGAACAGCACGAAGAAGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003290:ENSGALT00000005208:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF070016=BAT2_N=PU(22.5=97.4)
A:
NA
C2:
PF070016=BAT2_N=FE(34.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTTGAGGAGTGAGCGGGC
R:
TCTCTTCTTCGTGCTGTTCTTGT
Band lengths:
342-1360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]