BtaINT0068039 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006263 | GP2
Description
glycoprotein 2 (zymogen granule membrane) [Source:HGNC Symbol;Acc:HGNC:4441]
Coordinates
chr25:18108290-18110169:-
Coord C1 exon
chr25:18110007-18110169
Coord A exon
chr25:18108375-18110006
Coord C2 exon
chr25:18108290-18108374
Length
1632 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
AGATTTCTCCATCCCCACAGTCT
3' ss Score
7.42
Exon sequences
Seq C1 exon
CTGCCCAAATCAACGTGATTCCACCATCTCCGTGGAAGAGAATGGGGTGTCAGCAGAAAGCCGGTTCTCAGTTCAGATGTTCAAGTTTGCTGGAAATTATGACCTAGTTTTCCTGCATTGTGAGGTTTCTCTCTGTGATTTCATTAAAGAAGAGTGCCAACCG
Seq A exon
GTGAGTATCTCTTTGGACTGAACTATTCAGTGCCTGACACGGGGCCTGGTGCCTCCATTCATGTTTATTGGAATTATGTATGGACTGAAAGAAGGGAGGGTGGGAAGGAGAGAAGAAGGGAGAAAGGGAGAGAAAGAAAATCAGATAGATGATGAGATGGAAAGATGGATGGATGGATGAATTAATGGAAGGGAGGGAAGGAGAAACAGAGAAAGAGAGGGAAGAAAGGATGGATCGATGTAACTTAAGTCTCCAAAAGCCCATGCGTAAGCAATTATAGTATCCCCAGGAAGCATATTAGATGAAAGAGCCTGTCTACTATGTTTCCTTGGTACAGAACATTTTAAATTATTTTAATAGTAGTTGACTTCTTTGAGTGCTTACTCTGTGTCAGTTCAGTTCAGTTCAGTTGCTCAGTCGTGTCTGACTCTTTGCGACTCCATGGACTGCAGCACACCAGGCTTCCCTGTCCATCACCTACACCCAGAGCTTGCTCAAACTCATGTTCATCGAGTTGGTGATGCCATACAACCATCTCATCCTCTGTGATCCCCTTCTCCTCCCACCTTCAATCTTTCCCAGCATCGGGGTCTTTTCCAATGAGTCAGTTTTTCGCATCAGGTGGCCAAAGTATTGGGGTTTCAGCTTCAGCATCAGTCCTTCCAATGAATATTCAGGACTGATTTCCTTTAGGATGGACTGGTTGGAACTCCTTGTAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAGTTCTTCTGTGCTCAGCTTTCATTATAGTCCAACTCTCACATCCATACATGACTACTGGAAAAACCATAGCTTTGACTAGATGGACCTTTATTGGTAAAATAATCTAGGTTTGTCATAACTTTTATTCTAAGGAACAAATGCCTTTTAATTTCATGGCTGCAGTCACCATCTGCAGTGATTTTGGAGGCCAAAAAAATAAAGTCTGTCACTCTTTCCATTGTTTCCCCATCTATTTGCCATGAAGTGATGGGACCAGATGCCATGATCTTGGTTTTTTGAATGTTGAGTTTTAAGCCTGTGTCAAGCACCATTCTAAAACTTTTATATGCCTTATCCAATTTAATTCTCACAGCACACTTTTAAGTAGATTCTTTTATCAACTGCATCTTACAGATGAAGAAACTGAGCTCAGAGAGGTTACTTGCCTAAGGGCCTCAGAGCTAGAAAGTACCAGGGCTGACTATGCCCTGGCTGAGGTGTGACTTACATGCCCATGCTCTTAACCCAGATTCAACACTGCCTACTAAGAGTTGGCATTTCTTGAGTGCTTGCTGTGTGCCTGCATATTGCACACATATTTCCTTTTAACCTTCACAGCTGAGAAGATATGATTTAATAATAGTAGACAGGTGTAGTCATTTATTCCAAGTTAGACAACTGAAAGAAAAGAGAGGAGATTCAAACCCAGGTTCATTTGACATGACAGTGAGAATTCTCTAGATTGAGAAAACCACAGCGTCAGAGTCAGGATCATATCGTGGGTGGGAGCCCATTCCTGGGCCAGAGCTGCTCATGGAAGGAGCAATTTGGATAGGAACATGCCTTTCCATTTTGATATAATGAGATTTCTCCATCCCCACAG
Seq C2 exon
TCTTGCTCAAGAAGTCAACTCCGCAGTGAAGGGGTGGCTATTGATCCAGCCCGAGTTCTAGATCTGGGACCCATCACTCGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006263:ENSBTAT00000008217:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(21.2=100)
A:
NA
C2:
PF0010018=Zona_pellucida=PD(1.6=13.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCAAATCAACGTGATTCCA
R:
CTTTGCGAGTGATGGGTCCC
Band lengths:
247-1879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]