BtaINT0068038 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006263 | GP2
Description
glycoprotein 2 (zymogen granule membrane) [Source:HGNC Symbol;Acc:HGNC:4441]
Coordinates
chr25:18110007-18111285:-
Coord C1 exon
chr25:18111040-18111285
Coord A exon
chr25:18110170-18111039
Coord C2 exon
chr25:18110007-18110169
Length
870 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
TTGTCCCTGTCACCCTCCAGCTG
3' ss Score
9.2
Exon sequences
Seq C1 exon
TTCCCTGAACATCACTGTGGATGGGGAGGGAGAGTTCACTGTCAGGATGGCCCTCTTTCAAGACCAGGACTACACGTCTCCTTATGAAGGGACTGCAGTCATGCTGTCTGTTGAATCCATGCTCTATGTGGGCACCATCTTGGAGAGAGGGGACACGTCCCGATTTAACCTGGTGTTGAAGAACTGCTACGCCACGCCCACTGAAGACAAGACTGACCCTGTGAAGTACTTCATCATCAGGAACAG
Seq A exon
GTGCTGGACAATCTGGGGTTATCTTTCGGCCTAAATGAGGTTTGGGGTAGAGAACAATGATCAGCTCATCCCTGCCTGGCAGTTGTGTCGATTGGCTTGCCTCTTTTGGAAAACAATTTGGTATGACATGACCATACCCTTTGACTCAGAAATATCACTCCTGAAATTGTGGCCTTAAAAGATTAATGCAAAACAGATGGGCAAGGTAAAGAAATGCCAGTTATTTTTCATTTCAGTATCTTTTATCATTTTGGCAGTAGGTTCAAAGGGGACTTTATACTGATGTTAACACTGACTAAACAACATGGAAACAGTGTGTTATGGGACAAAATATTATTGAATATTGTTAACTGGCAAAAACAAAGGAAAATGCATATCTATAGATCACGATTCACACAGTAGTGAAAATACTAGTTAATATTTAGCATAGAGTTTAGGTGTGTACCAAGCACTGTGCTAAGCAGAATACAAGGATTATCTCATTAAATGCTCACATCAACCCTAGGAAGTACATATTCCTGTCCCTACTTTACAGATAATAAAACTGAGGTTCAGTAAAGTTAAGTAATCAGCTCACAATCATTTAGTTAGGAAGTGGGTTGGGTTGGAATTTGAAATCAGTCTGTCTCATTCTGGGGACTATAGGCCCCCAAATTTAAGCCATATGTGTTTATTGGTCACATTGTGGAGAAAACCTGGAGGAATAAAAATCTATGCTATAGGTTGGAATAAACCTTGGTGGGGGGTGAGGAGGCTCTTTAATTCTCTCCAGTGCTGTTTTTACGCTGGATGCAGATTAGAAATGCAGAAAGAGCCTCAGACCCCCTGAGTTTTTCTAGAAGCTAGATCCTTGTCCCTGTCACCCTCCAG
Seq C2 exon
CTGCCCAAATCAACGTGATTCCACCATCTCCGTGGAAGAGAATGGGGTGTCAGCAGAAAGCCGGTTCTCAGTTCAGATGTTCAAGTTTGCTGGAAATTATGACCTAGTTTTCCTGCATTGTGAGGTTTCTCTCTGTGATTTCATTAAAGAAGAGTGCCAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006263:ENSBTAT00000008217:6
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=0.073
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(32.2=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(21.2=100)
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:
ATGGGGAGGGAGAGTTCACTG
R:
AGAGAAACCTCACAATGCAGGA
Band lengths:
358-1228
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]