GgaINT0124680 @ galGal3
Intron Retention
Gene
ENSGALG00000009039 | NPDC1
Description
NA
Coordinates
chr17:847071-850541:-
Coord C1 exon
chr17:850397-850541
Coord A exon
chr17:847158-850396
Coord C2 exon
chr17:847071-847157
Length
3239 bp
Sequences
Splice sites
5' ss Seq
GTGGTACGT
5' ss Score
8.61
3' ss Seq
TCACGCCCGTGTCTCTCTTGGTG
3' ss Score
3.99
Exon sequences
Seq C1 exon
GCAGAGCCGTGTCCGCGGCGCCTGGACTGCGCCCTGCAGCGACGGAAGTTCTGCCCGCTGGGATCGAGCACCTGCGGCCCCTGCCTGCCCAACTTCCTGGAGGACAGCCATGGACACTGCCTGCAGGAGAAGCGCTCACCCAGTG
Seq A exon
GTACGTGCACCGCCCGTACTTCAGCCCTGCGCCCCATGGGAGGGGGTCCCGTGGCCATGCCCGTGGCCCCGAGCTGGGAGCACGGTGGCATCAGCTCTGGCACAGCCCCTCTCCCTCCCTCATACCCATCCCAGGGAACAAGGAGCCTGTGCTGGGTGTGCCCCGGGGCCGGCCCTTCCTGCTGGATGGGCACCTCTGAATGGGAGGGGAGAACCATGAAGCGAAGAAGCCCGGTGCTGTCAGTCAGAGGGGACGGGCAGTGGAAGGGGGGTGATGGATGGGTGCTGGGGTAGGGTCTGTGCATGGCATTCAGCAGCAAGCAGGGGTGGGTGTCCCGGTTGTGGGCTCTGCTGGGTGGGGGGGGGGGGGTTGAGTTTATTCTGTGAAGTCTTGGGAGCAAATTTTCCTCTTGGAAGTGCTGCACATGTGCCTGCATCTCCATAGCAACCCAGCTCTGTGTCAGTGTGGTAGGGAGATGCAGGGCCACAAGCAGCATCCTCTGCTGGGGGTGCCCCCACCGCTGCCCCTCCCATCCCCACAGCCACCATCATCCCAGCTGCAGCTTCAGGCAGTGTGCCGGTGGCTGGCTCCCCTTCAGCCCCTGTTTGTGTAGGAGAAAACAGAGATTTCTGAATCCTCTATTTTAGCATGCTGGAGTCCAGTAGCATCCTGAGGCTGCCCAGTGCCCTTTGCAGGGAGGCACTGACTCCTCTGTGGGTACTTTTGCATCCTAAGTGCTGATCCTGTGTTTCGCTCAGGCAGTGCCCGGCTCCCGGCTGCATCAGTGCATCTGCAGGGTTCTGCAGGGGTGCAGAGGAGCTGAGATAGCTGCATCGTGGTGGGGGGGGGAGGGAGGGGAAAGATGCAGTGCCAGCTTGGAAACAGTGGTTTCCACGTCCTCAAGGATGCCTAACCCTTTAAAGGGGCTGCCCACACAGCCGTGCTGCCCACGCAGCCCCTTTAAAGGGTCAGGCATCCTTCAGATGCTTGCGACTGCCAGTGACGCCGATCCCGGGATCCCAGCTGCTCACTGCAGTGCTGTTCCTGCAATTGGCTCCTGGCAGCAGCGTGGGCAGGAGCCAGGGCTCCTCTCCCTGGTGTGGGCAGCAGAGCTGTGCGCTGCCGGCTCGGCTCTGCAGAGTGAGAAGTGGCGCTTTGGGTCTGGAGCAGATGATGCACGTGAGCTGCGTGTTCCTCCCGTTGGTGACGGCGTGCATGGGGGTCATGGCGTTCCCTGCGCGGCACCAGCACCGAGGTGAGATGGGCTGTGGGGGACCCTGCCCACCTGCTGCAAGCTCACCTTGGACTCGTGGCGGGGTCTGAGCCCCCTCTGCTGTGGGAGGAGCAGGGCTGAAGTGGTGGTGAGTTTGTGCTCAGTGTCACCTCTGCTGCTGCTGCTCGGTCCCCGTGGTGTGGAGCCCAACAGCACGGCTGGGGCTGGCAGAGGTGGGGCTGATCCTGCCAAGCATGCGGGAGAAGGAAGGGGGTTCCTGGGCCGGCCCACTCCCCTTTGCTGTACTTCCCAGCACTCAGGAGGGATCTGCAGTCTCGAGACAGGATGGTGTGGATAAGGGGATTTGTAGCAAGGCTGTGCCTGTGCGCACTATTTGGGCATTCCCGCTGTCAGTGCACCTGGGACGGCAGCCTGCACGTGTCCCTCCTCCTTCTGCCTTCCTCGGGTCCCCCCAGTGGGACCCCATGTGCTGCGGGGTCAAGCTGGGGAGACGGTGGGCAGGGATTGCTGAGGAGCTGGCACCTGCCATCAGAGGGCACCCACCCTGCTGCCCCACTGCCCCCAGCGTGCCAGCTGCCCCCTGTGCCCCCGTACTGCCCTTCACCCTCACACATCCTGGTGCAGGGCTGCACTCCGCGCGCCGGTGCTTCACTGCTCCCTCGTGGTGCCCCTGCCCCGCACTGCAGGACAGGCGTGGTGGTCGCTGGGGAAGTTGTTTCTCTGCCTCTGTTAAAATTAAATGCTTTTAAAAATGTAATGGCTGAGAATGAAAAGGTGCATGCTCGTTTCAAACCGAGTGAAGTTGAAGTGCGGGGATTTTTAGCAGCTGAAAGGGAACGTGGAAATAAGAGCCGGTTAATGCAGGTGAGTCACTCGCCTGCGTTCTGCTGAAAGCGAGCACATGGCCGTAATGTTCTAACGCTGCCTTAAGGCTGGGAGAGCTGTGAGCGCTGTGTCCCGCAGCACCCTGCGAGCAGCCTTCGGTCTGCTCAGTGTTGGGGTGGCTTTTTTGCATGTATTAGATTTTTTTAGGCACATCACATCAATGCTCCAGAAACATCAGCAGTTACAGCAACGTCTGCCAAAGGCATGGCTGTGACATGGGCCCTGCACCCCAATCCCACAGACACAGCCCGGTTCTCCCAGGGATTCAGGGTAGGGTTGGGGTTAAGGTTAAGTTCGGGGATAGGCTTAGGGTTAGGGTTACGGTGATGGCTCTTCGTGCTCACTTTGGAGCCTTGTTTGCACACGTTTCAAACCAGGGGCTGAGATTGTCAGCCAAGGCTGTGATCCCAGAAGACAGCAGTCAGGGATGCACCAGGAGCAGCTCCGGGAACCACGGGGGCTGCGCCTCCCTCTGCTGAGCTAAGGTGGAATGGGTCACATAGGTGCTGGGCTGTGACCTCGCTGTCCTGCTGCCCTCCAGCCTGGCCGTGTGTTCCTGGTCCGGCCCACGGTGTCCCCGTTTCAGGCTGGTGCTTGGCTGAGGCAGACAGCAGTGGCTGTGAGTCACAAGGACAGGCGGGGGTGGCCGAGGGGCTCTGTGCCCAGCTGGAAGGGATCGGTGTTTATTTCCAAACGCTCCAAGTGATGACAAATTCCAGAGGAGCTGTAATTGTTATAAACTTGAATTTTCTGGGAACCGAGCTGCCTGCACCACCTTGCCTTTGTATGTCTTCATTTACCCTCCAGGGCTTCCCACTGGGGACAGCCTTAATGCAGCAACTGAGAGGGAGCACGGAGGTCTTCTGGCTTTGAAGTCGAGTTTAATCCTGTTAAAAGCCGCATGTGTGAGCAGCGGGCAATGCGAGCAAGGCTCAGTGCCGCTCTGCGCTGCCGCCCCACAGGAGGGCACCCTCGGGCTGTGCCCAACGCCATGGGGCTGCGAGCTGAGCTCTACAGCACCGCGTGAGCCCCTCCCCGGGGGGCTGCTCGCTCTGGCCCCGGGCTGGGTTGCCCCCTGGCAGCTGCCCCACGTGCCCACCTCACGCCCGTGTCTCTCTTG
Seq C2 exon
GTGCAGGGAGGACGTCTGTTCCCAGCTTAGAGGATGAAATCGACGTTCTGGCGGACGTGCTGGCCAGGCAAGATGCTACCCGCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009039:ENSGALT00000014712:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.433
Domain overlap (PFAM):
C1:
PF068096=NPDC1=PU(17.4=98.0)
A:
NA
C2:
PF068096=NPDC1=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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]