RnoINT0024283 @ rn6
Intron Retention
Gene
ENSRNOG00000001333 | Azgp1
Description
alpha-2-glycoprotein 1, zinc-binding [Source:RGD Symbol;Acc:2187]
Coordinates
chr12:19197787-19200234:+
Coord C1 exon
chr12:19197787-19198047
Coord A exon
chr12:19198048-19199958
Coord C2 exon
chr12:19199959-19200234
Length
1911 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
TGGGGCTGGGGAGGCTACAGGGT
3' ss Score
-7.77
Exon sequences
Seq C1 exon
GGTCTTATTCTCTGATCTTCCTCTACACCGGGTTGTCCAGGCCCAGCAAAGGCCTTCTGAGGTTTCAAGCCACCGCATTTCTCAACGATCAGGCCTTCTTCCACTACAACAGCAACAGTGGGAAGGCAGAGCCCGTGGAACCCTGGAGCCATGTGGAAGGAATGGAGGACTGGGAGAAGGAAAGCCAGCTTCAGAGAGCCAGGGAGGAGATCTTCCTCGTGACCCTGAAAGACATCATGGACTATTACGAGGACAGTACAG
Seq A exon
GTCAGAGAGCCCAGTGAGTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTATCTGATGCAGTCCATGAGTATGCGTGGAAAGGATTCCACAGGATAAAACAAGACACATCAGATATTTACATTAAAAAACATAGTGGTAGCAAATTTACAATTATGAAGTGACAACAATATAATTTTGTGGTTGGGGAGACAACAACATGAGGGACTGTATTAAAGGGTTGCACTCTTAGGAAGGTTAAGAGCCACTACAAGGAAGTGGTATCACAGTTCCTTCCTACACAGGCACCAGTGACATTTCATCTCCATACCCTGACCCCCTTGAGAGGGAATCAGATTCAACACGACCCAAGTGGAGAGCAGAATTCTCAAGTGGAGAGAAGAATTCTCAGTATCCTCCTCTGGACTCTGAGCGTGCACACATGGGTACATATAACTGCATACACAACCATGTGCTTATAGTACACACACACACACACACACATACACACACACACACACATGCATGCACACTCACCACAATTACTTAATTAATTAACAGTAACTTGCCCTTACTGAGCACTTAACTCTGTGCCAGGCTCAGGTGTGAGCACATTTAATGGTCAAAATAACATCTTCAAAGATTATTACTCTTCTCATTTCAGGGATTAATTTTAAGTATTTTACTTAACTGTATTTCATAGTTCATTCAACAAAACAGGTGAGTGAACAAGAGAGAGATCTGGAATTTAAATCTGGACAGCTTAAGAACTTTTAGAGCCAACAGCAGTCGGGACAGAGTAAATATCTGGTGGTGTTGTAATCAGACTGACCTGTTGTAGGTCGGTTACTTTGTGTAAGCGTCATTTTTCTTGGGCAAGGGGGTGAAGGCTTCAGAGACTTTGAGTAAACACCAAACAGGTTTAGAGGATGGTGGCTTATCAGTAATTGCAGCATTTAGAAAACTTGAGGCAGGAGATTGCTGGGTTATATGATGAGAACCAGGCCAGTGTGGGCTATAAAGTGTGGCCCTGTCTCAAAACTAAACAAAGGAATAAGCTACTAACCACTGAAAAGAGGGGAATGACTCAATTATGTATAGAGCAATGATTTGGATGCAATATAGACCTGACAAGTAAGAATTCCGATAATCTGAAAGAAACCACAAATAATTCCTATTTAACTTGAAAATGGAATCCGGTGTGATTGTGTTTAATTCTGAAGAATTCACCATCCACTAAAACACCTAAGTTCATTAGATATAATGATGTAAAAATGCTTCAAATCTGAGAGCTTACCTAGCATTCAAGAAGTTCTGGATTCCCCAGTGAACGTGATTGTTGTGGGGAGGGTGGTAATGGGTGGGGGGGGAGGATGGGGAAGGGAAGCCCATATAGAAGGGGAGGGGGAGGGGCTAGGGGGATGTTGGCCCGGAAACCGGGAAGAGGAATAACAATCGAAATGTAAATAAGAAATACTCAAGTTAATAAAGATTAAAAAAAGAAGAAGAAGAAGAAGAAGTTCTGGGTTCAGTTCCCAGCACTGTATAAAACTGGGTATAGTGTCACACACCCAGATAATCCTATCTAGCACTAGGGAGATGAAGACATGAGTCACCCTTGGTACCTAGAGTATCTGAGGCTATTACATGAGACCCTGTTAGACAAAAATAGAATTGGAATCTATCTACAACTTATCCCGGGAACTTCTCCGACTATACAGAATGTGTTCCCTCTCAGAACGGCCTGAAATGCTCAGCCAAGTAGTTTCCTCCTCGGTGTTGTGCCTGGCTAGCAACCTGTTTGCCAAGATAAAGAATTGAGTGTTTAGATGTCCCAAGCATACAGGAACTGAAAGTCACTCAGCTGGAGTTGGCATCCATCTAACTGACTCCCTGTGGGGCTGGGGAGGCTACAG
Seq C2 exon
GGTCTCACACCTTTCAGGGAATGTTTGGTTGTGAGATCACAAATAACAGAAGTAGTGGAGCAGTCTGGAGGTATGCCTACGATGGAGAAGATTTCATCGAATTCAACAAGGAAATCCCAGCCTGGATCCCCTTAGACCCAGCAGCCGCAAACACCAAGCTGAAGTGGGAGGCAGAAAAGGTCTATGTGCAGCGAGCCAAGGCATACCTAGAGGAGGAGTGTCCTACAATGCTGAAGAAGTACCTGACCTACAGTAGATCTCACCTGGACCGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001333:ENSRNOT00000001801:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACAGCAACAGTGGGAAGG
R:
GCTCGCTGCACATAGACCTTT
Band lengths:
352-2263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]