BtaINT0068035 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006263 | GP2
Description
glycoprotein 2 (zymogen granule membrane) [Source:HGNC Symbol;Acc:HGNC:4441]
Coordinates
chr25:18113082-18114590:-
Coord C1 exon
chr25:18114480-18114590
Coord A exon
chr25:18113300-18114479
Coord C2 exon
chr25:18113082-18113299
Length
1180 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
CCTTCCTCTCGACTTTCCAGATG
3' ss Score
10.39
Exon sequences
Seq C1 exon
ACCCTGCCACCGCGGAGGACAAGTGTGACAGGACCTGCCGCCCCGAGGAGGAGTGTCGCCTCGTCAGTGGCACCTGGGGCTGCTTCTGCAGACAGGACCTCAACGTCTCCG
Seq A exon
GTGAGCACTGGGACTGTGCTGACCCAGTGGGCAGGGCAGGAGGGAGGGAGCTCCAGAGGGTCAGGACTATGTGTGGACCACAGTCAGTGGCGATGGAACCAAGGTCAGCGGATGAGAAGTGCCAAGCCAGAGAGCTTGCAAGGATGGGGCCAGGGGTCGGACACATTTCCAGGTCAGCCACTGGACGGTGGCCTTGGGAATGGGTGGGCTTGACTCATGAGGGACCAAGATACCGAGGATGAGGACTCTGCCGGTGTTGGAAGCTGTGTTCAGGTATCAGCATGGTCTCCACGTGAGGAACAGGGGCAGACTCCTGCGTCAGTCTTGGATTTGTCGGGTGGGGTCTGGGACCTGGGGCCAGCTGCTTACCCTCTCTGAACCTTAACATTCTCATCTGTAAAATGCGGTTGAGATAATAATAATGATTTTTAAAACCCACCAAGCAGGGCTTTGATGAGAATTCAATAAGAACAGTCCAAATGGGCAGGCTCTGAAGGTGATGTTCTTATCATCCCAGCAGGTAAGCAAGCACAGGCACATGGCTACAGATGAGCCCTAAGCCCTGGATGGGAGTTGGAGGAGCTTTCCAGCGAGAAGATCTCCTTCCCTCCTAGACTCTAACGAGAGCCTTTGATTCTTGCTTTGGGCACAAGCCTGCTTTCCTCTGTGTGTACTCCTCACCCCAGTGGAGGAGAGAGTGTTCAATATTGAGGGACAAGAGGGAGCTTGAGGTCCCTATCTGTGGTGGCAAGCGTGTCCTTCTACTCCACATGCAGGGAGAGCACCTTTCACATGGGAGAATCATTTCCTGTTTTCAGGGAAACAGAGGTGTGTCAGAGCATGACTCTTGCATTAGCTGCAACTGAAGTAATTTTAATTCAAAATAATCAATACACCATTTGGCATATTTGGGGATGATCTGCTCTGGGTCCCAGGAGAGACCAGACATGAGAGCCTTCGCCAAGCCTGCACACAGCATGCTTGGAAATCTTGGACTGGGGCATCTTGGCCAGCCTCACCTATCACAACCTGAGTGTAAATCCCACGTGGGCCTTGGGCCCCTCTAGCCTCCCCAGCCTCCTAGTAGGCAAGGTGGTTTGCCAAAGGGCACAGTATGTGAGCTCTGCCCACTCCTTCCAGACCCCTACCCATCCCACCTGCCTTCCTCTCGACTTTCCAG
Seq C2 exon
ATGTGCACAGTTTGCAGCCTCAGCTGGACTGTGGGGACACAGAGATCAAAGTGTCACTGGACAAGTGTCTGCTGGGAAGTCTGGGTTTCGGAGATGAGGTCCATGCCTACCTGCGGGACGGGAACTGGAACTGCAGCAGCCTCAGGCAGAGTGAAGAGGAGAACTGGATATCTGTGACCAATCCCACCCAGGCTGGTGCCTGCGGAAACATTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006263:ENSBTAT00000008217:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010018=Zona_pellucida=PU(24.7=86.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCGCGGAGGACAAGTG
R:
TGGGTGGGATTGGTCACAGAT
Band lengths:
294-1474
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]