DreINT0120764 @ danRer10
Intron Retention
Gene
ENSDARG00000062208 | prrt1
Description
proline-rich transmembrane protein 1 [Source:ZFIN;Acc:ZDB-GENE-060503-686]
Coordinates
chr19:27276402-27279403:-
Coord C1 exon
chr19:27279074-27279403
Coord A exon
chr19:27276594-27279073
Coord C2 exon
chr19:27276402-27276593
Length
2480 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TTGTTTGTGTCTGTTCTCAGGCG
3' ss Score
10.57
Exon sequences
Seq C1 exon
ATGTCTCAGCCCATGATGCAGATGGCTCCACCTCCATACCTGCCCACCCAGGACCCCAACATGCCCCCACATCCCCCTCCACCCGGCTGTGCCCCGCAGCCTAACTACCCTCCTCCGCCTCCTCCACCGGGGTCTGATGGATATCTGCAGGAAACACAATTCCACTCTGGGACGCTTGGACCCCAGGGAGCTCCGAATGGATACCCAGTGCAAACACATGGACCAGTGGGCACCGTCCCGCATCCTCCTGTGGGCTATTTACATCCAGGATACCCCCTACAACTGCAGCCCTGCACAGCCTATGTGCCCGTTTATCCTATAGGCACAGGG
Seq A exon
GTGAGTGAGGATTTGTGTCATTTTGTCGATCAGATCACAAGTGGACAGATGTAAATGGGTTTTAAATGTCTTGAGCTTGTCTACTTTGCTGTCATACCATGGCTGCAGCAGATCCAGTGATATTACACAGTGCTGTTACCTAGTTACCAGAAGCAGGCTATTTTCAAATGCTGAGTAATATCATTGCGCCTGCTGGAGCCATGGTAAGGCAGCAAAGTTCCCTGGTTATTACATTGGAATTAAAAAATTATTGACTGTTTTTTAATATTTTTAAATAAGATGCTAATGGTCTAATCCAATTCAATGATTTATGCTAAGCTAAGCTAAAAGTGCTCCCGTCAGGCCTGAATATGCGCGGAATAGATCCAAAACTGGTAAAACACTACTGTTAAACTCTAGGTGACTTGTAAAAGGAAGTGTTCTTTTAAAGAAACAGGAAAATGGTGATCGAAAGCGGTCAATTTTAGTCACGAACTGATTTTAAAAATGGGTATAAATATCTCTGTCTCATCTACATGTGATCTGAACAACTAAAAAGCATCCTAATACCATGTGCTAACAGGTACAGCATACAACAAGAAAGCAGAGCAGCCCAAGATATTACAGTACATTACAGTGAAATTTCTATGAACATTATGTGTTTCTGGGCATTTTAATAGCCATATCCAGAATCTTTATATAAATTATGCAGGTTTTTCTAATGTTCAAATAATTATGTGAGATGGGATTTAACTGCCTTACATCCCTGGAGGCCAAAAACCAGTGTGTGCAAGATGGAGATATACTTATAGATAAGACGGAGATATATCTTATAGATAAGAGGCATGATTTATTGTAACTTTTTATAACTCTTGACTGCCAATATTAGGAATTAATAATAAAAGAAAAAAAGTATTAATAAAACATGGACATTTTGCATCTGAAATTGCATTTTTAATAGTAAAATTATTTTAGAATAATTTTGCAATCCACTCATATGATATTACCACAGAAATATTGTGAAGGTTTATATAACTATGGGTCTTTGCTATGTTAAATGCATGCAGAACAAATAAACTTTCATTGCATTTTTTTTATTTTTTTTTATGTGAAATAACATGTAATTCACCCAAATATTTTAGCTGTGGCTATGATTTGGTCTAAATAAATGAAAATAATAATAATATTAATAATAATAATAAACCAAATTTAGTAATAAATATCTGATGATATTATTTTAATATTACAAAAGAATTCCACTTAAATAGTAAAGTTATAATACTAATAATTATTTATTTTTTCTTCACTTTTATGCATTTAACTGGGGGGGAAAACTTTAGTTCACAACAGTTTAAGTTATAAATCTTTATAATGATTTATAAAATAAAAAAATGGAGTTATCTGTTTTTGCAACAGAACTATCATTTGAATAAATCAGTCTTATATACAATATTATGCCATTATGGTCTAGATTTTATGCAGTAATTGTGCTATTTCAGCTCTTGTGCTTGTCATGCCCATGTCAATTTTATTTTTTTAGCCTTATTAAACTCAAACAAAGATTGACCAGTGTGCTGCACAATACAAATCACACACAAAAGACTAGCATCCTCTCCAAGAGATGGTCAAAACTTAAACTGATGCTTTTCATGATAAATTGAATGAAACAACAATGTTCAAGCGAAACAGAATGCAAAAATAAGAACATTAAATCAATAGTGCATGTATTAGCTTAATGCCAACTTAGCAGCTCAACATCGTATTTTAAATACTTCAACACAAAGCTGAAACACACAATATACTGTACATAATATTTAGTAAACACTAACCTTGTCCGGAGAGTGTTAAAACATTTAATAATAAACTTTTCACATATAATGAGTCATTTAAGATATCTTTCCATCTTCACTAAAGTAGCAATCTCAGTCTGCTCCGTATGCACGTCATTTTCAAAATACAATTTCCTCAATACAAAGCATTATATGAAGCATACAAGTTCAAAATAAAGACAACAAAATTGAGTAATATTCAATTATACCATGTTCCTTTTAAACATAAATTGTAAAATAGGTAGTTCTATTTATCTACCACTGGCTGGTTAATTTTGAACGCTGCATGATTTGCAAACTGTCTGTGAGAGCAGGGGTTTCATTCATAACTACGTAAGATCATTTGAAACCTTCCTAAAAGTGAACAAAATAAATTGAAATTTATTTACTAATGATTATGACACACACATATCACATGATTGTTAAAAGTGGATCAATTAAGTCAATATTTAAGTTAAATTTTAGTTTTTAGTTTACTTAAAGCTGTGCCCATTCTCCTGTCAAGTTTGCATGGGATGTGGTGTATTTACATTTCCAGCCCCATTTTGTGCGAAAGCCACATATCTAAATGAGAGCCCAGATCTTTTTCTTAACCACAAAATATTTCGATTATGTACCTTAATTTTGCACCAGTTGAAACGTTTTTTTTTTCTTGTTTGTGTCTGTTCTCAG
Seq C2 exon
GCGCAGCCTTACATGCCAAATGGTGCGCCTCATCCAGGTGTTGCCCCAGGCCAGATGGCCATGCATATGCCAAACGGCATTGCTCTGATGGAGTCCCGTCGTCCTCCTCATGATTACCTGCCCATCGCCGTCCTAACCACCGTCTGCTGCTTTTGGCCCACAGGAATAATCGCCATCATCAAAGCTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062208:ENSDART00000145568:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.742 A=NA C2=0.219
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF045057=Dispanin=PU(50.0=64.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]