RnoINT0102519 @ rn6
Intron Retention
Gene
ENSRNOG00000013895 | Npdc1
Description
neural proliferation, differentiation and control, 1 [Source:RGD Symbol;Acc:1303156]
Coordinates
chr3:2625015-2627898:+
Coord C1 exon
chr3:2625015-2625190
Coord A exon
chr3:2625191-2627751
Coord C2 exon
chr3:2627752-2627898
Length
2561 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
CGCCTCTGCTTCTTCCTCAGATG
3' ss Score
10.08
Exon sequences
Seq C1 exon
CCCGGAGTGGGTACCGAGCCCGGGGCCGTGGGGTGCCATGCTGCCCGGGTGGCGGCGCTGAAGCATGGCGACGCCCGTCCCTCCGCCTTCCCCGCGGCACCTGCGGCTGCTGCGGCTGCTGCTCTCCGGCCTTATTCTGGGAGCGGCCCTGAATGGTGCCACCGCCCGCCGCCCGG
Seq A exon
GTGAGCGAGCGCTCTAGGCGCAGGCTGCGGGGCGCTCCGGGGCTGGGATTGCCGGGTGGGGAATCCTGCCACCCGGCGCCGCCCTAGTCTTCCCTGCCACCGCCCTGGCCTTACCCAGGCCCACAGGCCAGGCAGGCCCTATCCGCTGGGCATGGGTAGGGTAAACAGGTCAGGCCTGTTGAAGGCCATGCTAGATGAGTCTTCTCTCGGGTTCTTGGAAGCGAATGTAGATTTCACGTGCTTTTGGTCTTTGTCTCTGGGTCCCAGAGTCAGTCTGTTGTGTGTCTCCGGACGTCTTTCTGGGTCTTCAGCCATCTGGTTCCTCGTGGCCCTTCAAGGGGATCCTGTGTCTTTGTTTTTGTGTCTCCCAGGCTTGCAGTTGGCAGTGTTGTTCCTGGTGTCAGCGGGCCTTGCCTGTCAGCCCTGTCTCAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTAGAGGGGTTCCTATGACAAAGTCTAAGGGTTCCAGGCCTAGGGTCTTGTTCCAATTTAGTGGGGTCAAGCTGCCCCCATCCCCTGCCCTGGAGGGCATGCACCACCCAGTCCTCTGGTCTGAGGTCTGTGTATTGACCCTTTAGAAGAGTGTGACCCCCTCTCCCCCAACTGGGAGAACCTTCTTGACAGATGGGTCCTGAAGCCACAGGATTCAAATTGAATCTCCCAGAGGGGAGTGAAGTGGGAGAGGGTGCCTATATGTTCACTGAGTTTGTCTGGTATGTATGGGAGCTGCTTTGAGCCCAGTTTACAGATGAGGAAACTGAGGGCACGGAGAGGTGACTGGTATGTGGCACAACTGGAACTCTTAACAAGATCAGTCTGGAAGTGGGGCCTTAAGAGCTTGGCAGACCTCCTCCTAGGCAAGCAACCCAGGAACTGAACTGAAGGTTGGCATGACTGGAAAGGTTGGCATGACTGGAAGAGACTCTGGAGGGTGGAGGGCCAGACTGGGCCTTGGCAGAGGTGCTAAATAGGCTGTCTCCCAGGTGGGTCCACCTCAGGGATGGGACTCAGTACTGACCTCCCTGGGCAGGTGCAGGCCTCTGCTCATTGGCCTCTAGCTGAATGCAGAGGCCTGGCCTGACCCCATGCTAAGCAGCCTCGTATCAAACCTAGTGCCCAGGAAAGGCCAGTAGCCAGGCATGGGTAGGAAACCAGTTACTCTCCAGCTGCCATTGTTTCTGGGACCCAGGCTGGAGGGAGTCTTTCTACCCAAGATTAAACAGTAGGCTGGCGGACTAGGGAGGCCCTACAGCCCTAAGCCGGCATTGTGCTCCACCTCTAGTATAGGTCTGACTAGGTTGTCAGCACCAGGGGCAGGGACCGTCTGGCTCCCTGGAGCCGAGCTGGTGGGTGGAGCCCATGGAAGCCTCCTGGCACTGTGCTGTTTAACTCTCCCAAGCCCCAGGCTTAGATTGCTGTTCCTGGAGGCTGCTGACACAGTCTGTGGAGGATAGAAGGTGTGCAGCCTGGGACTCGGTGTGCCACCTGCCACCAGAGCCTCTGGAACCTCTTTGCGGGAGATGTAGAGTGTCAGATTACAAAGGAAACTAAGCCAGAGTCTGTACACATCCCAGGGAGCCTGCAGTGTGGAGACTGGAAGGGTCTGGTTGGCCTGAGAGACAGGCAGGGTTGATGGCCCTGCTGGGTTCCTGAGACAGGGACTAAAGTTGCAGTCGCAGGCTGGGATTATTCCTTACCTTTGAAGCAACTGAACTTGTGCATCCCATAGGAGAGACTGAGGCGTAAAGCTCACTGCTCTGTGTAGCTGTGTCAGGATGGGCTGATTGGCAGGTATAAGAGAACATTGTGCTCTGGACCCCGAGCGACAAAAGTGTGAGTCAGAACTATGACTTATGGCAGCCCCAACACTAATCAGCCCAGGCCTTTCAATGCCTGCATTGTATCTAAGCCAGTGCCTTCTTAGGTCTCCCAAACCCTAGTGCCCTGAAGACAAAGGCTAGGCAGAGAGAGCCACTGTCTTCTGGACTGAGCATTTGTTCTGTGGGCTGCCAGACTAACTCTAGGGTTATAGGATTATGTGTTGGGGTATGGAGAGGAGCCCCAGTGTTTAGGAGAAATGTCTACCCAGCATCCTTTGCTTCTCCAGAGCCGATGAGAGAACAGAGCTCTGTCCTCAGTAGCAATTTGGATGGAAGGTTCTGGCTCACTCTGAGCCATGCAAAGGTCAAAGGCCAGCCTTGGAGAACTATACAGTCCTTTCTTGGAGAGCTGACCGGACGCTTAGGGTCGGTTTATCCTTTAAGCATAAGGCCTAGGAGCAAGACTGGGGAGTGGGTGGGGCAGGATGGTTCCCATAAGATGTGGGACTGTCTGCTTCCTGATTCCGAGAATTGGCAGTAGGAAACCAGGGCTTGTCCAGGACAATGGCTGGAGCTATGCCTGCCCAGCTCTGTGGAGGGTGGGGTTTCTATACAGAGCTGCTGCTGTAGGGGTTGGAGGTCAGTCAAGTGGGCTGTGATAGGCCGCGCCTCTGCTTCTTCCTCAG
Seq C2 exon
ATGCTCCCACCTGCCCTGGAAGCCTGGATTGTGCACTGAAGAGGCGGGCAAAGTGCCCACCAGGGGCACATGCCTGCGGACCATGCCTTCAGTCCTTCCAGGAGGACCAGAGAGGGGTCTGTGTGCCGAGGAAGCACCAATCTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013895:ENSRNOT00000018927:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.526 A=NA C2=0.400
Domain overlap (PFAM):
C1:
PF068096=NPDC1=PU(11.2=97.4)
A:
NA
C2:
PF068096=NPDC1=FE(14.8=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:
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]