MmuINT0042447 @ mm9
Intron Retention
Gene
ENSMUSG00000042401 | Crtac1
Description
cartilage acidic protein 1 [Source:MGI Symbol;Acc:MGI:1920082]
Coordinates
chr19:42362343-42372312:-
Coord C1 exon
chr19:42372144-42372312
Coord A exon
chr19:42362489-42372143
Coord C2 exon
chr19:42362343-42362488
Length
9655 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCTTCTCCTTCCTCCCACAGGAC
3' ss Score
13.9
Exon sequences
Seq C1 exon
GGCTTCAGCAACAACTGGTTGCGTGTGGTACCTCGCACCCGGTTCGGGGCCTTTGCCAGGGGCGCCAAGGTTGTACTCTACACCAAGAAGAGTGGGGCGCACCTACGGATCATTGATGGGGGTTCCGGCTACCTGTGTGAAATGGAGCCTGTGGCACATTTTGGCCTGG
Seq A exon
GTGAGTTGGGGCCCATGACAACAGTAGTAGTAGCCTTCCTGTGTGCTGCAGCCCTAGGGTTTGGGAGGTAACTTCTCTGTGGCAGCACAGTGGGTGCCCATTGTAAAGGCCACCACCTGTGTTCGGTGGTGAGTCTGTGCCCAAGAAAGAGGAACGGAGGAAGGGGAAAGCAGGAGCCCCCAAGCCAGGGCTTCTGTGGAATTAGCTCACCTAGGGGTCAGAGTCCTTAATTCTCCATTCTTAATTCTGCCCAGACCATAGCTCTGTTTACACACTGAACTCCACCAAATATGTCCAGAGCAGCTGTCTGTGCCCCACCCCCATCCCCGGAGCCAGTTCAGTCTTTAAGGTACTGCCCAAAGTCTGATGTCTTCCTGGGACGGAAGGCTTAGAGTTTTGAGTTTTCTTTCTTTCTTTTTTCTTCTTCTTAAAGATTTATTTATTTGTTTGTTTATTTATTTATTTATTTATTTATTCATTCATTCATTCATTTATTTATTTATTTAATATGAGTACACACCATTGCTCTCTTCAGACACACCAGAAGAGGGCATCAGAGAGCATCAGACCCCATTATGGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAACAGTCGTTGCTCTTAACTGCTGAGCCATCTCTCCAGCCCGAGTCCTGAGTTTTCAACGGGCACAGAGTCACTTGAAGAGGTGAAGGCTGGATCTTGATGGAGGATGGGATTCTAAAACAATCACGGTCTTTCTTTTGTGTGTCTAAAAGCTGGGGTGTCCATCTATCACAGAAGCAGTCAACAGCACACTCCTGGGGCTAATGTGCTCTTACTCCACACTATTTAGAGCAACCCCAAAATCATGCCGCAAGGTCCTCGGCAGCTTCCAGACACAGGAGAAACTGGCTCTGCTGCAGCCGTGGGGTGTGCGTAGGCTCCCACTCTAAAAAACGCTTTTGTGGATCATAGCTTTAGTTTAGTATTTATCATTAGTGGCGGCGGGGAGGGGGCAGGCACTCATGCACGCAGTAGTCAGAGCACAACTCTTGTGGAGTCGGCTCTCTCTTCCACCTTTATGTGGGTCCCGGGGATTGAACTTAGGTCACTGGGCTTGCATGGCAAGTGCCTCTAACTGCCGAGCCATCTCACTGGCCTGTTTGGTAGATTCTCTTGAAATAATAAAAACTGTTAGGTGTGCCCCAGTAGTTACAGGTACTTCTTGTTTTATACTGGGGTCCCATGCCAAGGTAAGTTAAGAGATTTCAAGTTGGAAAGGCATTGAGTTGCTCAGCAAATCAAAGACATGTCCTCAGTTAGCAGCATGGCATACTGCAGTGTCAGCTGTTCCCTTTGTGACTACTACCGCTGCCCAATGTCCCAAAGGGGGACCATAATGTATATTACTGGACCAGGAAGAAATCACATTCAAGGTCCTAGGTTCAATTTCTAATTGAATATCTCTTGGGTTTCACATCTAAAAGTTACAAATGCCATCACCAATTGGGGGGCAGTCTGTAATATCCCTGACTATGGATCGCAGAAGAATGAAAAATTAGACACACAGAGATCTCTGCACTGTTATTCATAGTAGTAGTAGTATGTATGTGAGACAAAAATCAAAAACAGTGTCCGGGGTTGGTGGGCATGCCTTTAATCCCAGCACTCAGAAGGCAGAGGCAGGTGGATCTGAGTCCTAGGCCAGCCTGGTTTACAGATCAAGTTCCAGACCAGCCAGGGCTACACAGAGGAGCCCTGTGTCAAAAGACAAAACAGAAACAGAAACAATGCAGGCATCCTTTGGTTGCTGGTTACTGGCTCGTGGTTCAGCTTGCTGTGGTACACTAATGCAGCTCAGCTGTAAGAGCTGTTTGCTGAGTAAAGGGGTCTTATCTCCAAAGTCACCTTCCCAAAATGTCGAGGTCGTAGTAAGCTCCCGATAAAGAGATGCTGCCGGGTGGATGCCCATCTCTGCATCTCTGCAGTGATGGGTGTCTCACTGGCAGTGGCTATATGAATCTAAGGTGCCATCATGCCAGAACTGTCCACACACCTGTTCCCGTGGCAAAGCCCTGATTTCCATGTGATACAATCATAAAGCAAGCCATAGCCACGGGGGCAACTCTATACAAACCCCCTCTGGCCAATCTTAACTACCTGCTGTGTCTCCAGCTATTTCAAAATAAACCATTTTTTTAAAAGCCTGGAGGTTAGAGGAAGATGTGAAAATTCCACAGGGAAGCTACAGGGATTACAATTAATGGGCCAAAGACGGAGGGGTACTGGGGAAGGGGTGAGCCAAGAGTTAAAGCATTTGAGTCAAAGATTCCCAGGTGCTAACCAGATGCTTTCCCATGTGTTAGCACCTTGTGAAGTGATATGATCTTAATATAAAAAGATTAGACAACATGTTCTCTAATCGATACGTATATACCAGCATTAACGTTAGGCACGCATCGTATGTGCACAGAAAGGAAATGCAGAGAGCATAAGCAATTGCTTCGGTCTGTGTGGCTAGATCACTACAGGGACTGGCACCTGTTCTGGGCACAGTGGAGGGCACTCAGTTCTCCTGAGTACCCCTGTTGGTCATTATCTCCATCTTGCAAATGAGGAAAACATGGATCCTAATGTTAGAGGAAGACTGACCAGGAGCTGGTGATTCTCAAATGACAGAGCTGGGATTCAAACCCTAGCCTGCCTGAATTTGTATTTTCTACCATATGTTCTAGTATATGTGTGTGCATTCTGGTTTTTATTGAGAACACATAATATTTATGTAGTCTGGGAAAGAAGCAATAAATATTTAGGGGACCCAGGGCCTGGTTATATGAGCATGTCCCTGGGCTATCGCGCTTGGATGGGTTAGCCTGAGCCTGGGGCATCTGTCACTCCTAAGGCAGCCATTTGCTGTGCTGGCCCTAAAGGTACAAGCTGATTTTTAGACATGGAGTCCTCCCTCTTGCAAACTAGCAGTAGCTGACACCTACGGAGTGTTTCGCATGTGCAGGGCTTTGCCTAAATTTTTCATCAACTCTCTTGGGAATTTGACGAATTATGAGCCATAGTCCGTTACTTTACAGAGCAGAAATCTGAGGTTAATGCTAAATGCACTGACCCAGTTCACAGCTGCTGAGGATAGGAAAAGGCTGGCTTTGGACTCCTCCTTAGACACTGAGTTGTGAGCTCTGTGGCTCCGCCTCCTGTGTCTTCTCCGCCCCTTTCTTCCCGACATGTATATCTCCTCAGCCTTTGGGTATCCCAGAAGGCCATTCAAGCATCAAGGTGGCTGTTGTCTCAAGGTGGGATGTTTATCAAGCTAGATGTCAGCCCTGCTCCACTGGACAGAAAAAGAAATCGAGGCTCCCAGAGTAAACCAGCAGAGAGACAGGGCCTGAGCTGAGACTGTCTGACCTCACATCCTATAGACAGTCTTTGGTATTTTGAGATGTGTATTAGAGACCTCCCTGGGTCCTTTCTCTGTCTAGAATCTGTCATCACCATTGGAGCCTGCTTCCTTGACTGGACAGCTCACAGGATCATTTGGTGAGATCCAGGGTGCTCAGGAGTCATCTACCACCCAGGCTACATAAACTACATCTGACTAGGGGCCCCTCCTGATGCCAGCCCTCATGACTGTGCAAAGAAGGGATTTGCTGTTGGTTTAAACCAAACTGCCGCAAGGGTCCCACACCCTACCCCTACCAGGCTCCTCCTTTGTAGGGCTCCATTCCCAGCAGGACCCTAAAAGGAGGCCTACTCTTTGGAACAGACCCTTGTTAGTTGCCTAAGATGGGTCTCAGGCATTAGAGCAGCCTCCGGGATCATTACAGAAGCCTGAACAGTGAGTGAGACAGGCCAGCTCCATCCCTGCCTTTCAGGGCCCCTTAGGATTCCAACAGGTTCTTTATGGGCCAAGCATAGAGTTGTCCTTGCTGAATGATGGGAAAGGCAGCAGTAGGGCAGAGCAGGCAGGGAGAGAGACGGTGGGGGAACCAGGTAGTGGTAGTGGTAGAGGAAAAGGAACAAGAGAAGAGAATAGGGCAGAAGCAGAAAGAAAGAGAGGCAGAGACATGGGGAAGAGAGGCCGGAAGAAACGCTCCAGTCTGCTGGGTAAACCCTGGAAATCTCATGTAAGGCTGTCATGCAAAGCTAACTCCGATGCACCCGGTGCTGACTTGGAGTTTGAGAGTGTGGGAGTTTTGTGAGTCAAATCAGCCCTGCTCTGGACAGCTTTGCCAAGGAGAAGACTGGATGGGGGAGGGGGTGGCTAGCAAGATGGTAGGAACTAAGAAGGCAGGGGCAGGGCTGAGAGCGTCCCAGAGGCCAGGCTAGCTTGAGCCCAGGCCCAGTGGTGGGAATATTCAGTTGGGGCGATAGGAGCAGAGTCTGGAAAGTGGGAGCTGGGCCAAGCTCCCTCCCTGGGGTCTCCAGGGGAGGCTTGGAAAGGCTGTGGTAGACAGTGGGTGTCCTGTCATATCCAGGAACGCCAAGGCAGCACTGTGGTGAGAGTCACTGTGCAGGGGCAGCATCCCCCACAACACTCGTTCTCAGAGGCCTCTTAAAATTTTTCTCTTGATTGTGAGAACAATGTGTATTGATTATAGGGAAATGAGACAATACAACAAATCATAAAAAGAAGTAAAAATCACCCACAACCTCATCACAGTGCTTAGAATATTAAGTAAAAAACACAAACATCTCCTTCACCCCAGCCCCATTTGATCCGTTCATTCCGTTCGTGTGCACTGAACACCTACTAGGTGCCCAGCAGGAACTACATCGAGACCCTTGCCTTGAAAATCCCTGTATGCTAGTGAGAGATGAAAAGCACGGAATACATGGTGAACAGAATAAGTAGGTGAAATAGACCATGTTAAGATTGCATTAAGTGCTACAAAGAAAGAAAATGCCAAGCAGAAAAGGAAGTTAGGAGCAGGCGGGAGAAGGGACAACAGCAATTTTCAAATATGAGGCCACGCTTCAAATAAGCCATTCTCCCATGCAATGCACACAGGGGCACGTATATAAATATACATACTACTTAGGTTTGGGGTTGGTTTGTTGTTTTGTTTTGGTTTTTTTAAAGAATGAAAAATGGCAAGCTTGCTTTTTTTACTGCCCTGAACAGTGAAAGCCTGGCTGTCCCTCCACCACTGTGCACGTCTTTTATTTTCCTCCAGCTCCACAGAGTATCGCACTGTGTGGCAGCATTCATAACTTATTACCAAGTCCCCTGTTGATGGACAGCTAGATTGTTTCCAGTTCTGAGCAGTTGGGGGTGAGAAATGCCTGCCCTGGGGTTTTCGGATGCCTGAGAACTTGAGTAGAGGGTGAGGCTGTGTCCAGGGGCCCGGATCTGGAAGGGGAGCGCTGCAAGAGGCCCTCCAGACAGTGGGCACACAGTTCTGGCCCAACCTAAGCAACCCCGTTCCCTGATGGTCCTCACTCCTGAATTCCCTCCCCGCTGTTCCTTTCTGATGTGGTGAGCTGGTGCTGGGGGACGGGAAAGGGGGTGAGCACAGAGGTGAGTACCCAGAAAGTATATAACCTCAGCCCTTCCGGTCCACACGGACTTCCGGTCCCCACAGGAGGACGAGGGCGGGTCAGACTCCCGGAGGCTGCTCTTGCTCAGGCTCACCTGCCTGCAGTCGCCTCTCTGTATGCTCCAGGCCTTCCTAGGTCTATGTAGGAACAAATAAGAACAGCAGACTCAAACCTTCCATGTAATTTCACCTCCCTCCCTAGAGTACCTGAGTTGTGCTGCACCAGACAGTTACAAAACAAAACTCTGGGACCTTTCTTAGCCTTGGTCTCTAGGGGTCCCCTGAGGACCCAGTCAACTATGCAGGGCATTATGGGTCTTTTTCCTTCTCCGGCTGACCCTGCCCTCACTCCAGGGACCTCACTCCAGGGAACCTTAACCACATTCGCAGTTCCTGCACAGCTGCCCCCTCCCCGCACCATCCCTTGTCGCGGCTCCTCCTGGGTGCAGGCCACCTGCCGGCTTCATAAATAAGCCTTTCTGTTTATAGTGTTGACTACTGCCCACCCAGCCCCCAGGGCTGCCTCTGCCCTTCCTGACTGCCAGTAGGCTGAACCAGTGCACAGCCAATCCCAGCAAATGAAAACAAGTCCTGCCAACCCGCTTGGCCCCTGTATGCCCCGACTGTGGTCACCCACTCAAGTTCTCCCAACCCCACGCACTGATACCACCCCACCCCACCCCCCTTCTACCACACCTTCCCTTCAGCTAATTGTTTGTAAGTGCCTCAAAGCTGCCTCCAAACCGGCTGGTGCTCATTTAGGGAAGGAAAATTCAGTGGCCCACATAAAAATGCCTTTATTAAAGTGCAAAAATATTCCACCGACTGTATTCCCACCATCTGTTTTGCTTGTAATTCCGAAGAGCACAATTCCATGTGGCTCCCTGGCCTTTGTCCTTTCAAAGCTGCCAGAGGCAACTCCCTGCTGTTCCTGACCTATGTCTCTGCTGGGTAATAGTGTCCCCTAGGCAGACCCCTCCCTGCACATAAGCCCAGCAGAGTGGCTGCCTTGGAGGCCAGGAGCCAGGTCCTCCAGCTTCAGAACACTGGAGATGCCTGAACAGCAGCCTAAGGTTGAGGATCTATCTGCCTGTCCCAGGACAGAGCCTGGGTTCCAGCCCTGGCTCAGGCATTCCCAAGTCACTTCCCGCCTTGCCAAGCCTAGGTGTCTACATTCAGAAAGTGGACACAAAACACCAAGCTTCAAAGTTCCTCCCTCGGTTCCTGCCCCCCACATCCCACCTAATAATATCCTTCCACTCTGCCTCCCCCGACTTTAAACTTCTACATCTTCAGACACAACTTGCTCTTCCACACCAGTGTCCTTACCAAGCAGCTCCCAACCTTAGAACACCTTTCTTCTCTGTCTCTGACCGAATGGACTGGCCTGCTGTTCTCACCAACCCTGTCCCAACACCTCCCTCACTTGTTATGATAACATTGTGATTGTTTTTCCCCACAGCCACCCGAATCCTCCAGGTTGCCTGGGTCCTTTCTGTTCAAGGCTGAATCCTAGATACCTACTCGATATTTAATATTATGATATGGTCACTGGGTAGGGGCAGTATAACAAGGGTGGATCTCTGGGGTCACACAGGCCTTGGGTGGGTGACTGGGTAGTGTCCCTGGCCTCTCCAAGTCTCAGTGTTCTAGTCTCTAAGATGAAGATGTATGAAGGTCTGTTGACACCGTGAGGCGTCAGGTCTGGTCTGAGCATGCTGTCAGTCTAAGACCTGTCTAAGAACTGACCAGAATGCCAAGGGTGATACATGGTCAGTGGAAGTTGTGTCTTCATGATCCAAGGGTGAGAGGCTGTGCTGCCCAGGGCGGAGGGGCTGTGAGCCAGCCAGCACCTTCAAGTTTCAGACAAATAAACCAAGGCTGGAAAAGGATGGCTTGCTTACTTACCTAACAGCCCCTCCCTGGTGCGTAGGGAGAGACCCTGGTCCAGCGCCACATGCCCCGCTGGGGGCTGCAAATTTGAGTCTATGAATATTCCTCAACTCTTTTGAGTTATTTGTGGCTTCAGTCAGGCTGTAAAATGTATTCATGGAGCTGTTCCGTTGGCTTAGGTGAGAAACACTTGCTTTTGTCTCCTTTTTTTTTTTTAAACGGAAAATGTTTGCTTTTCAAATGTGCCACTTAATTTGGGCACGTGCACGCCCTAAAAAATGCCAGATTTCATGTTGCCTCACGATTCTGTTTTAAAACAGAAGAATTATACTTGGCCTTCTTCTGGTCCTTTCCCAACCCGGATCTGGGAGTTGTGGGGATAGCAATTGGCCTGCTGAGAGGCTGCCTCGGACTAGATAGGGGGTTCTTAACCTGTGGTTCCAGACCCCTCTAGAGTTGAAGGACCCTCTCACATATATTTCTGTTACAATTCATGATAAGTAAGAAAACTACAGTTATGAAGTAGCACAGAAAATAATTTTATGTTTGGGGGTAACCACCACATGAGGAACTGTATTCAAGGGGTGCAGCACTGGAAACGTTGAGAACCTCTGATCTAGATGAAGCAAAACCTGGAACAGACAGGTGAGCTGTCCAAGCCTCACCCTGCCCCAGGGATCTGTGGGAGGAGCGGGGATGTCCTCTGAGCCTTTCCCATGACTGTCCCTGCACTCTTCCAGCGATGTACTGGGCACTGCCTGCCTTCCCTTACAACCTGAGAAAGGCTGGCAGGTGCTGCTGATCAACCCCTAAGTCATCACCATTAGCCAGACCTTGCCACAGGGCTAGCCCACTTCCTGATGCAGGAGCTGAGCGGACGTTAGAAATGCCTAAACACTGGACCAACCTTCCCAACCTGTTTCCTGATGTGTTGCTATAGCATGCTGCTGTAGGGATGTGTGTGATGGATTCACAAGGGACAGTGTCTGAGCTTTACAAGTATCTTCTGTTTGTCTTTGTTGTTGTTTTAAGATTTTTTTAATTTTATGTATGTGAGCACACTGTAGCTGTACAGATGGTTATGAGCCCTCATGTGGTTGTTGGGAATTGAATTTTTAGGACCTCTGCTCTCTCTGATCAACCCCACTCTCTCCACTCGGCCCTGCTCGCTCCAGTCAACTCCACTCGCTCAGTCCCTGCTTGTTCCGGTCTAAAGATTTATTTATTATTATACATAAGTACACTGTAGCTGACTTCAGACACACCAGAAGAGGGAGTCAGATCCCATTATGGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCATCGGAACAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCCACAGGTATCTTTTGTAAATGGCTCGGATCTGCAGTGGCCTTCCTTAGGTGCCCTCAATCCCCATCTTTCCTGTAAGCTTTACTTACAGCTCAGTTCAAGTGCCTCCTCCCCAGGAGTTTGACCTTGACTACTGAACAGGATCTGGCCAGCCCTGAATGACTCCTTGTCCTTTCTTCACAAAGCGTGTCAATAGACACCATGATTTATTTCTTTATTTGTCTGTTTGCCCACCTCCCAGATGGACAGGGAAACCCATGAGGAGACATTCCAGTCACAGGAAGGGGTGTGGCTCTAGCAGGGCTCCAGAAATAGAAATGTGAGCGAGCTCGGAAGGTCACACGAGTTGGCTGGAGAGCTAGGATTTGTCCCCAGGACTCCCAGCCACCTGCTCTGGTCATGTTCTTTCAGCATACCAAGCAAGTGACAGAGCCAAGATGTGAACCCCTGGCTCTGAAGTCAACCTGCTTCTCTCTGAGCCACACAGCTCCCCAAATTCAACCTCCTCATGCCTGTTCTGTTGCCTAGAATGCATCATGTAGCTGTTGAGATGTAAATTAATTTAAATTAAGTAAAATGCTAAATTCAGTAACTCTCATCCTGCACCGCGGCCAGGGGCTAGTGCACTGAACAAGGCAGACACTGGGCTTTTCCATCACTAAAGAATGGTCGATTGGACAGTATGGCCCCAAAGAGGAGCTTCTAAATCGTTCCCACGGCCCTTAGGAGAGTGTGTCGTCAGTTACAACCTTTGTTACCATAGTTACTCCAAGAGGCCCTCTCTCTCATGCTCCTGACCCTTCTCCTTCCTCCCACAG
Seq C2 exon
GACGGGATGAAGCCAGCAGTGTGGAGGTGACGTGGCCAGATGGCAAGATGGTGAGCCGAAGTGTGGCCAGCGAGGAGATGAACTCGGTGTTGGAGATCCTCTACCCCCAGGATGAGGACAAACTTCAGAACACAGCCCCACTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042401-Crtac1:NM_145123:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0183918=FG-GAP=PD(2.6=1.8),PF075937=UnbV_ASPIC=PU(55.7=68.4)
A:
NA
C2:
PF075937=UnbV_ASPIC=PD(42.9=61.2)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: