MmuINT0042039 @ mm10
Intron Retention
Gene
ENSMUSG00000035403 | Crb2
Description
crumbs family member 2 [Source:MGI Symbol;Acc:MGI:2679260]
Coordinates
chr2:37795375-37799103:+
Coord C1 exon
chr2:37795375-37795501
Coord A exon
chr2:37795502-37796447
Coord C2 exon
chr2:37796448-37799103
Length
946 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TTGTCTTCCATCTATTGCAGAAA
3' ss Score
11.13
Exon sequences
Seq C1 exon
ATGTCAGAGTCTCGACAAACCCTGTGAAGCCAGCCCTTGCTTGAATGGGGGCACTTGCCGGGTGGCCAGTGGCATATTTGAATGTACTTGCAGTGCAGGATTCTCTGGCCAGTTCTGTGAAGTGGTG
Seq A exon
GTGAGTGGTACCCAGGGCTGGGTGGCAAGGCCTCTTTAGACCTTAGCAAGAGGACAGTGGGCAGGGAGGACTTGTGGCCTTTGTGGATTTGACAGTGGACAGGCTTTGCTGAGGGTGGGGAGAGAATACTTAGGCCCTTTCTAGTACCCAATGTAGGGGTTATTTTCACCTTAGGGAGAGTTGAGGGAGCCCCCATCCATCAGACACAGTCTGGAGCGTCCCAATGGTATCCAGGGTAGTAGCAGTGGAAACAGGCTAGGATCTTCCAAGTGTACTCTGGGACTGGCTTCTGAGACTATGGGAACATGGAGTCCCTGGGTTCCAGAGCCCAGTTTCTGAAGCGGATCAGGCTTGGGCACTGTAGGTATCCCTCACCCCAAGGAGGCTCAGCTGACAGAGGTCTGGGCCCTGTGGTGATCAGCACAGAGCTTTGGAGAGGCTCTGAGCCCATGGGGGGTGCTGATATCGGGTGTTTTGAAAGGACAGGCTGGGAGGCTCCCGGGGAGTCCCCTTTGCTTCTGGGAAGAGTTCCTGTCAAGGTGACCTTTATAGCCTTTGCCTCTTCACCTTCCCACTATAACATCCCCCCCCCCCCCCCCCCACACACACACCAGGGGGAGGAAATGGCTTTACAGCTCCTGCTGAAGTGCTGGAGAGAGGGAAGGTGTGAACTTTATAGCTTTGGGGCCCCCTTCTTCAGGGCTGAATGCTCAGTTCATTCCAGCTCTGCTTTCTGTTCCTGCTTCACTTCAGCTGACTGTTGAATTCTGTGACTCCCCCCCACCCCCCAGGCACTCCTGGAATGTCTACTGTCTATCCTCCTAGCCAGGCTATGCAACACTCCCAGGCTAACATTGGCTTCTTTGCTTGGACATCCCAGGGGCCGTCTCTCTCTCTCTAACTCTGGGACACTTTTCTAAGTTTTCTTGTCTTCCATCTATTGCAG
Seq C2 exon
AAAACCCTACCTCTGCCTCTGCCGTTCCCACTGCTGGAGGTAGCAGTGCCTGCAGCCTGTGCCTGCCTCCTCCTTCTCCTCCTGGGCCTCCTCTCAGGAATCCTGGCTGCCAGAAAGCGCCGCCAGTCTGAGGGCACTTACAGCCCAAGTCAGCAGGAGGTGGCTGGGGCTCGTCTGGAGATGGACAGTGTCCTCAAGGTGCCACCAGAGGAGAGACTTATTTAGGTTTGCCTGGCTGCTGGTGCCATGTCCTGAAGGTCCTAAAGGGTCACCACAGGACTTCTACCTGGAGACCCAAGGAGACTGTTTCCAGAGCTGGGACATCCACAGGATGTGCCCCCATGGTTGGCAGCCCTTGCTCTGTCCATCATGGACTCAGGAAATGGGGAACAACTCAGGGAAGCAGAGGAGGCTGTGAGAGTGTGTACTTCTCTGACCTGCTGGGCTGGATACAGGGCACATGTTGGTGCCCATGATATGACAGGGTGTGTGCATGTGCTTCTGTGCATATGTGTTTGTGTATGTGTGTGCATCTTTCTGTTTGGGGAAGAGGAGGAAAGAGAGAGGAGAAGGAGAAGGAGACTATACATAGGGATGTGTTGGTCTGCAGATTGTAATGTGTTATGACTGTGGTAAGGGCTTCATGTCTGGGAACCACCCAGATGGTTACCTCTGGGACAGGGGCAGCCCAAGGCTGCACGTTCTCTAGCACTGGACAGGCCAGAGCTTACCCAAGCACCTAGACTTTGGTCTTGACATCTTGTTCAACCTCCAAGAACAGCCAGAAGCTGGGATAGGGAGGAGTCTCCTTGGTTTCCAGAACAAAAGCCCTTTGGGCAGGTCTGTAGGAACCAAGGAGCGGCTGCCCTGGGTTGCCCTGCCTGCTGTGGGCATTTGCCAGAGTGGAGCAACCAACCTGTCTGCCTACCTCACATCACACGGCTATTCTGAGGATCCGAGAGACAAACAGGCAGAAAACTCCAGTCTGGTGGGAAGAACTGGCTGCCCTTGGGTGTTGGAAAGTGTCTTGCCCACCTAGAGTTGAAAAGGCTTCTTGGGACCCTAGCAAGAAGGCCAGAGAGGTGGAAGAACGGAGATGCTATTATCTTCTGTCCCTGACCCCTGCAAACTCACCCCTTTGCCTGCAGTTCTGTTGCCAAGGAAGGCTCTGTTGTGTGCCAAACAACAGTGTCCAGCAGATGGACATCAGGCAGCTTCTGCATTGGCGCTCAGGCTGCAGAAGCCGATTACATCCTGTGGACACTCAGTGCAAGTGACTTCTGACAACTCCTCTCCCAGGGCATTGGCCTGAAGGTTTAGCCTCCCTTGAACTTTCCAGAGGCCTCTGACTTGGAGATGTGTCCTTTGTCATCTTTGTTTATCAGGCAGTGCCTTCTCACAGGAGTTCCCATGTGCAAACGCCAGGTGACTTTTACACAAGGAAGCTCGGTGTCTCCAGGTTTCAGCTGCCTCCCAAGGCACAGACTTGGGGGAACCAGGAGATCAGTAGAAGCTTTGTTAAGAGACCCTGGATGCTAAGCGAGAAGGCCTACTTGGTTCTTACTCTGTAGTGGTGAGGCCACTTTGCCCCGAGCTATCTCCATGCCCCTTGGGAGAGGGGAGAGGAAACAGGCTCTTGGGTGAACTGTTTCAGTTGCCAGCTCCTAAGATGATTCTTGTGGAATGCCAACGGAACGAAACATCCCAGTTCCACGTCAGTGTCACCAATGTGGCCTACACAAGTACTCTCACTTGGGGGAGATGGTGTTCTTGCTGAGACAAGGGGGAGGAGTGGAGCTTGTTCCTTTGTGTAGTCCTGCCCATGATGTAGTGTCCACTATGATTCCCTCATGGGGAGGGATGGTGTAAGTGGCTCAGAGCCTCAAGCATGCATAGGCTGGAGGACAGTGGCCTCTGCTTCTGCAGGATGGCTGGTGGAGGTGGCCAAGTGCCTGCTCAGGCAGCCATCCCCCAGAGCTCCTTGTAGGACTCAGGACTACAGCCCTCTCCCCAGTTTTATTGACCACATATAGAATTCATCGTTGGATTGCAAAGTCTACCCAGTGAAATGGACAGATGACAACAAACATGTGAACTACAGGTGTGTGCCTTCTTAGGCTGCCCGACACCCTGTCACCCTATTGGCCCACTAGGCTGTGGCACTGCCTCATCTTGGGTGGAACCCGGAATTTGTTAGGATGGAGGAAGTGGGGCTGAGGCCTGTCCTGGGACACCAGAATGCCAGAAGGCTTCCCACGACCCAGTGAGACTCCGCTCCCTGGTAGCTGAGCACACCACCAAGACAGAGCCCTGGGGAAGGAGGGCTACCTCTCTGGCCTAGACCTCAGGGACCCATAAACAACCTCTCAGACAGAGAGGGTCCCTAAAGTAACAGGTACCTCTGATGACCCCACCCCCTTGTTCCCAACCCCCAGAAACCCTGGGGTAGGCTGTCTGACCATTTACACATAGGAAATGAGAAATCAGGTCAAATGTGCACAATTTCCTGCATGTCTCTGATGGATGTTTTCTTAAACGGTCAGTCTGTGTTTTACCTTGGTTTATTGAAAGGAATCAATTTTCAAGATTCATCAAATCAATAAGGTAAAAAGGAAAAGCAAGATCAAAGAAAAAATAACAAAACATTTCATTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035403:ENSMUST00000050372:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.041
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=88.4)
A:
NA
C2:
NO
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:
TTGCAGTGCAGGATTCTCTGG
R:
ACAGTCTCCTTGGGTCTCCAG
Band lengths:
347-1293
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