MmuINT0139961 @ mm10
Intron Retention
Gene
ENSMUSG00000019124 | Scrn1
Description
secernin 1 [Source:MGI Symbol;Acc:MGI:1917188]
Coordinates
chr6:54522760-54525711:-
Coord C1 exon
chr6:54525509-54525711
Coord A exon
chr6:54522955-54525508
Coord C2 exon
chr6:54522760-54522954
Length
2554 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACACATCGAACTCTTTGCAGAGG
3' ss Score
6.06
Exon sequences
Seq C1 exon
GCTTGGCTTAGAACGAGGGACAACAGCTAAAGAAGCCCTAGACATCATTGTTTCTTTATTGGATGAGCACGGACAAGGTGGAAATTATTATGAAGATGCCCACTCCTGCCATAGCTTCCAAAGTGCATATCTGCTGGTGGACCGAGATGAAGCCTGGGTGCTGGAGACTGTAGGGAAGTATTGGGCTGCTGAGAGAATCACAG
Seq A exon
GTAAGGGGGTACAGGATAAAGACTTTTGATGATAGGACACCCTGAAGTTATGCTGGTCAGACATGCTGGGCTGGCCCAGAAGAGCTGTGGTGCTGTGGTCCATCCTCTATGCATCCCGCTTCAGGCTTAAGCATGCCTTTCACTTCCAAGTACCTGCTTGCAGAGGTGTATCCGGAGTCTCCTGAAGGGATATCAAGCCTCAGAAAGTGCCCATCTAATTCTTTACATTTCCTGTTTGCTTTTTTGACATATCTAGTTTCGACTATAAACCATGACTATGGGTTAGGCAAGGGAATGAGGAGTCTTGGATCATAATAACCAATCCCTTGTCACTCCTGGCTCCACAGCTGTTTAAGCTTAGACTCATCCTCTAAAGTAGAAACTTGGGTCTGTGAACACTACCGAGTGCTACTGGGTGCCAACCAGGTCACACATCTGAGACTCCATCCCTAGGAGGGCATCATAGACTTGGCCATCTACATGAGAAGTGCCCCTCTGGTTCATGCTGCTTCTTGTTTCTGGTTCAGTGCTGAGACAGTGTACCACCACTGCAGGGCTCTCCCTCAGATTCCCAATCGGATAGAGTACTAGAATTGGCTAACGGGCTCCTGAACGTCCTACATACCTCCAAAGAAAACTGGTCATTGGTGGTCCCTTTGCACTCCTTGCGACAAGATGATAAATACACACTGTGTGCATCAACATTCTCCCTTCCCAAATTCGAGGTATCTCCGGCTAGTAGGGCAACTCTTGTCCTTTTCTTGAGCCTCTACACCACTGCATACTTTTGTTCAGCTGAGTTTATTATGAAGTCTTTACCAGTTAATTATGGAAGATATTAGGTATGCAATCTGTTTGCTACTCCAGTTTTTAGATAATCAGAACGAAATCAGACCTTAGCCAGATCTTGGCAGTCACTGGGAGTCAAACCTGGTTTTGTGCACGGGTTCCAGTGACGGAGGCTCCCCCACAATTAGCAAATGTTCTGTGCACAAAGTTATCCTGCTGAGAACAAGAGGGTAGACCAGTTCTCTGTGTGCGTGGAGACTGTGTCTTCTCATTCTCACAGGATGTGGAACAGGCTAGCAAAGCCATCAGCGAGTTTTCCTACCTCCATGGCGTGCCCAGCATATTTCTCAGGACCTGTGCACGATTCCTGGGGTCTTAGAGCGTTTGCAGAACAAAAGGTTTCCCCTCCCACCCCCAGACCTCCAGCTCCCCTTCCCCTATAGGAACTTAAAACTCCTTTACACAAACCTCCCTGAGATAAAGCAATGCTATCAAATGGCTCTCCCGGGAAAGCGGATGGGCTGTGCTTCAAAGCCATCCAGTTGCTTTTAAGTAGAATCTAAGACTTTTTGATCTGTAGCTACATTCAGAAGCACGGCTTTCTTCAAAGCCTCGCTTATAAAGGTCCATCTCTACAAAATGAGTGTTGTTTTTCACTAAACATTTTTTTTTTTCGAACAGCCATTTTTTTCCCTCTCATCAGTTTCATGTTCTCTGACTCCAGCAGCAATAGACTGATGGCGGTAGGAGTTATTGAACTCTGTCCTCTCGGTTCTGATTCTTTAAAAAACAAACAAACAAACAAACAAACAAACAACAACAACAAACCAAAACCCCCAAACAAGTGTGTACTATAAACTAGCCTCTAGGAAAATAACCTCAGTGGAGTTCTCAAGACCCTTTCTTTCTTTGAATCGCTCAGCATGAATGGTCTCAATATCACTGTTTTTTGTTTGTTTGTTTGTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTGGATCATAACTGTTTTCTGTTGCTTAATTAGAATTTTACACTAGTGATACCCTTTAGGAAAAAAGGAGCCTGTCAGTCAAGAGTGAATAGTTTGGAGGTATAAATCATCAAAACAAGGAATCCTGGGAAAAGGGTCCAGCTGACTTGACTTCAAGGCACCCGGATTCAGGCTGTAAGGGTTCTACTGTGGTGGGATTCAGGCAGAGAGAGCTCTAAGGTAGCCTTTTCTTTCTCACTTCATTCTCCGGGAATTTGGAAGCTCGGCACACTCTCTGGGAGCAGCCTCTGTGATTTAGCAATGGTGACCCAGCCTCCGCAGTCTAGACAGCACCTTGAAGCTTAGCGACCAAGTCGCCCTTCACCTGTCTGAGGGTATGGGGGTGGGGGTGGCAGAAGTGTTCTTCCGGTAGGAGCGTGTTCCTGGGGAGAAGGAGCCTGTGAAGGTTGTGGCGTAGCCCCGTAGAGGAGCCAGACATATATCCCGAGTTTCCTGAGAAGTCCTTCCAAAGACCTGTTCAGTTTCCCTGTCGCCATGTATGCTTGAGGCTTATTCAGTCACAACGAAAGGCCTTGAGTGTTTGTGAACTTAAGATCAGTGAACGTGACGTCCATCTAAGCTGTAACAATGTCCGATGGAGACAAACTGAACCTTTTGGGATGTCTCCTGGAGGGAGGATCAAGGATTTTGTGCTTCTCTCTTCAGAAATGGCACTGATTCCTTCCTGGAGTCTCGGCTCCCTTTCACTAACCACACATCGAACTCTTTGCAG
Seq C2 exon
AGGGAGTGAGGTGCATTTGCAACCATCTTTCCCTCGCGACTAAGCTGGATGAAGAGCACCCAGAACTCAGGACTTATGCTCAGAGTCAAGGCTGGTGGACGGGAGACGACGAATTCAACTTTGCCCAGGTTTTTTCTCCAGCCGATGACCGTTTGGACTGCTGTGCAGGCCAAGACAGCTTAGAAAAGCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019124:ENSMUST00000019268:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=FE(35.1=100)
A:
NA
C2:
PF0357710=Peptidase_C69=PD(27.8=81.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types