BtaINT0024532 @ bosTau6
Intron Retention
Gene
ENSBTAG00000026236 | AZGP1
Description
Bos taurus alpha-2-glycoprotein 1, zinc-binding (AZGP1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034331]
Coordinates
chr25:36982287-36983547:-
Coord C1 exon
chr25:36983272-36983547
Coord A exon
chr25:36982857-36983271
Coord C2 exon
chr25:36982287-36982856
Length
415 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
CACACCCTGTCCCTCCACAGAGT
3' ss Score
10.72
Exon sequences
Seq C1 exon
GGTCTCACACCTTTCAAGGAGCATTCGGCTGTGAGCTCCGGAATAACGAAAGTAGTGGAGCATTCTGGGGGTACGCCTACGATGGCCAGGACTTCATCAAGTTCGACAAAGAAATCCCAGCCTGGGTCCCTCTGGACCCAGCAGCTCAGAACACCAAGCGGAAGTGGGAAGCAGAGGCAGTCTACGTGCAGCGGGCCAAGGCCTACCTGGAAGAGGAGTGCCCAGGGATGCTGCGGAGGTACCTGCCCTACAGCAGGACCCACCTGGACCGACAAG
Seq A exon
GTACCCGCTGCTGCCTATGCCCCACCCTCCCTCGCCCCAACCTTCCCTTGCTCTGCTGGGAAAGACCAGGGCAACCTCACGTGGGTGCCCAGGAGACCATCCCAGGCAGACCCTGCAGTCCCTTCTCCCGGTGACACCACCGCCCGGCTTGGCCATGGAGAGAAGGCAGTGTGTGCAATGCCTGCCCCGTAAGGATGGAAACAGGGGTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCCCGGCCTTCGAGGAGAAGTCCTGCTCACCCCTGACGCCGGGGTGGGGAGCCGTGGGCAGGGATACGCCAGGCCCTCGGCACCCACACCCTGTCCCTCCACAG
Seq C2 exon
AGTCTCCTTCTGTGTCGGTCACCGGGCACGCGGCTCCAGGGCACAAGAGGACACTCAAGTGCCTGGCCTACGACTTCTACCCACGAAGCATCGGGCTGCACTGGACTCGGGCTGGTGACGCCCAGGAGGCTGAGTCAGGGGGCGACGTGCTCCCCAGCGGCAACGGCACTTACCAGTCCTGGGTGGTGGTGGGGGTCCCCCCTGAGGACCAAGCCCCGTACTCCTGCCACGTGGAGCACAGAAGCCTGACCCGGCCCCTCACCGTCCCGTGGGACCCGCGGCAACAAGCCGAGTAGTCACCCTTTCTGTGCCATGAGAGAGGTGGGCGCTCCGAGCTGCTGTCAACGTCGTGGGCCAGGCCCAGGGGATGGCGGTGGATTCCAGGTGGTGGATTTGGGAGGGAAGACTTGAATGCCGAGTGCTGAGCCGACTCACAGCCAACCAGCCTTGCAAAAAACCCATTATGTAATCTGCGAAATCAAATCAGCATCATCGCCTTATAGAATGATTATTTTTAAACTGCAAAGTGCTGTAGAAATGTAAGAGTTTGTCATTAGTCCTGCCTCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000026236:ENSBTAT00000037204:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.459
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=82.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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:
GGCTGTGAGCTCCGGAATAAC
R:
CCGATGCTTCGTGGGTAGAAG
Band lengths:
344-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]