MmuINT0044853 @ mm10
Intron Retention
Gene
ENSMUSG00000032808 | Cyp2c38
Description
cytochrome P450, family 2, subfamily c, polypeptide 38 [Source:MGI Symbol;Acc:MGI:1306819]
Coordinates
chr19:39389556-39392290:-
Coord C1 exon
chr19:39392149-39392290
Coord A exon
chr19:39391113-39392148
Coord C2 exon
chr19:39389556-39391112
Length
1036 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
GGTTTGACTTTTTTTTCTAGGAA
3' ss Score
9.16
Exon sequences
Seq C1 exon
GGAACAACAGTAGTAACGTCACTGACATCAGTTCTGCATGACAGCAAGGAGTTCCCCAACCCAGAGATGTTTGACCCTGGCCACTTTCTAGACGCTAATGGAAACTTTAAGAAAAGTGACTACTTCATGACTTTCTCAGCAG
Seq A exon
GTAATGGAAACTCATTCCCAGGGCTCTGGTGACATGAAGATCTGTGGGGACTTACACAATGGCTCCCAATTATTGGTAGTCTTGCAATTTTTACACAATCAGCAGCAGGCTTATCCATGTCTCAGTGTCCATCCTAGAAAGCAAACTTCATTTTCATTTTACTTTATCACTGCAGAAATGAAGGCATCAGAATTTAAATTCATACTTCTTCTACTGTGTCACTCACCTCTATTCTCAGTTAGGTAACTACAAGTCTCAAAAAATACAGAACATCCCCAGAGTGCCTCAAGTACACTTGGTAATGACGTGTATGAACACTACTTGTTAAACTTGCTAGACAGTGCAATGAGAAAATTTCCCATATCTCTGGGTTATTGAGAAGATGTTATTAAAATCCTTCTCAAACTTTGTATTTTAAAATCCCAAAGTGGAGCAGCATTGTAATAAATGACTTCCTAGCTGCCTCAGGATGTGGGTAATAGAGAATTACAAAAATAAACCATGTATCAGTAAGGAACCATTGGATGAGGATATTTCTATGCAGCACAAATGCCAGAAACCTCAAGAGCATTATGAGGTGATGGAGACATTGTACTTGTGGCAGGGCATCCTACAGTGATCATTGGGAACTTGGCTTCACCCTATTCAAGATGAGACTAATGGATTTTGAGTGTACACTTCCAGTTTCTATATTGCCTTCAGATATGTAGTTTCTTTCCTTTGTTTTGTTATTTTGATAGCAAACACGGAATCTTGCTTCCTCGGTCTCCCATGAAGTTTGATTACAGGTGTGAACAACCACAGCTGGCATTTTAAAGCATTTTTTGAACAATTTGATACTTAAAATGTTATGTTAGTTTGTAAACAAATTTGTTCCATCTCTGTCTAGTTGTTTGGTTGTCCTTTCAGCCATCCATCCATCTAGTCACCTATCCAATGACACCGTTCAGTCATAATCTCTTGTGTCAGTTACAAGTACAGTGCTGTACACATTTATGAATAAGAAAGAGTAATCTGGTTTGACTTTTTTTTCTAG
Seq C2 exon
GAAAACGGGTTTGTGCTGGAGAGGGCCTGGCCCGCATGGAGCTGTTTCTAATCCTGACCACCATTTTACAGAACTTTAAACTGAAATCTCTGGTTCACCCAAAAGACATTGATATGATCCCATTTGTGAATGGATTAATCACTCTGCCACCCCATTACCAGCTCTGCTTCATTCCTCTCTAAAGAGATCACACATTCTGAACCCTCCTCTGTTGCCTTCTGCAATCCCCCCCCCAGGGTTTTATTCACCTCTTTCCTTATCAGGGATAAGGCATCTTCCATCCTGGCTCACAGAACCCCCTTTTCTGAAGACCTAGCAAACACATGCGGTTTCTGGAGTTATAGCACAAATGCACTTGTATTATCTCTTTTATATAACAGTTGTCTGAGCCCTTATGCTTATGTTTATCCATTCCTGCGTTAGAATAAAACTTCACTGGCAAATAATAGTTATTATAAGATAATTCCTAGTCTTTTTTCTTTTGAATATTTTCAATAATAATTGTATTTGATATGTGTTCCTGTTCTCAGACTTATAATTTAGGTAAGAAAATAATATCCTAGCACATCATTCTGGTTCACATCACAAGAAGCATATAGAATGCAAGAAGAAATGCTAGGGAGATATGTTATTCATTAAAATGCTTTCATCCAAACGTGAAGAGCTGATACAATCTCTAGCATATATCTAAAAGACCAGGTATGGTATTGTGTATTTGTTATAGCAAAATTGGTGGGTAAGAAACAAGACAGTCCTGGTGCTTGCTCAATACCCAGACAAGCATGATTAGTGGCCTCATGTTCCAGAGTTATCTTGTCCCAACAAAACAAGCTTGCAATCTCCCAACAACCAATACCCAAATTTCACCTCTGACATATACATATGTGTATATACAGGTACATGTATTGTTTCACACACATGTGCTTGATTATGTACACCCATTGACATACCCACATTTATATATATAAAACAGAATATGAAAAGAAGGTTTTTATTGAAGTTCTTTGGATAAATTATGTTAGAGTCATTGGAAAATTTAAAACATATAAGCAATAACTAGAAGCAACTCCATTCTTTAAAGGACAAATTCCATGGAAGGATACACATGCAGGGTAGAGATCAAATCTTGCTTTACTTAGTCTGTCAACTAAACATAAAATTGCCTTTGACATGATGTTCACAGCTTAGAACAGCAAGCATTTTGCTTTCCTATTGCTAAACATATGCTCTGTGTACCTCTGTTTTTTCTCAACAGGAACAATGGTCCCAGTGATTCACATTTCTTTTATTTCTAGATACACCATTTCATTCCCACTGCATTAAAGATTATTACATTACCACTCATACCACTCAATATCCCTTCATGTCTCAGTCTTAAAGGAAGCTCCTGTGTCTGTTATTGCTAAGTTCCTACCTGGAAGCTTACTGCAGAGGTATGTCTGCATAAATGTTAGAGCAAACTCATACATCCACACATTCTATATGACCTATATACAGATGGCTATGGTACTAAATGCGGCTCTTTGTAAATTTAAAATAAAAATAGCTACAGTTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032808:ENSMUST00000035488:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=PD(12.2=91.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCCACTTTCTAGACGCT
R:
GTGAGCCAGGATGGAAGATGC
Band lengths:
358-1394
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