MmuINT0022491 @ mm9
Intron Retention
Gene
ENSMUSG00000004085 | B230120H23Rik
Description
RIKEN cDNA B230120H23 gene [Source:MGI Symbol;Acc:MGI:2443258]
Coordinates
chr2:72276259-72280667:+
Coord C1 exon
chr2:72276259-72276409
Coord A exon
chr2:72276410-72279288
Coord C2 exon
chr2:72279289-72280667
Length
2879 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
ATTTCCATTTTCCCCTGCAGGTG
3' ss Score
13.34
Exon sequences
Seq C1 exon
AATGATGTCAGAACACCAAAACTCACTAAGCACGTGCACTCCATACAGTGGGACAGAACGAAGCCTCAGGATGAGGTGAAGGCGGTCCAGCTTGCCATTCAGACTCTGTTCTCCAGCTCAGAGGGCAACCCTGGCAGCAGATCCGACTCCA
Seq A exon
GTAAGTTAGTGTCCTTAACTCAGCCCGCACACCTGAGTCCAGGATGTTAAGTTATGAGATTCCCATTGCAGAGGAGAGTGCCAGGCAGAGGTGGCTCAGATGCCTAACTCAGACACCTTGAGACCTGAGAACCAGCAATGAGGCCTGTCGATGACGGAGGAAAGGTCAGGGGAGGGAGGAGAAGATGGACAAACGAGAGTGGAGTAGGCAGGACAGGATGGAGAGGCTCGGCGTGATGGCTCGGTGTATGTGAGTACTGACTCTTGTATGTTGTCCTCTAACCACGCAAACATCATGGCATGAGCTGTTCTACACACACACACACACACACACACACACACACACACACACACACCTCGAATACACACAAATTGAAGAGAGACAGTAAAGAGAAAAACTCCAACGCATATGCTGGATACTGGTGATAGTAATTTTTAAAATGTAGAAAAGCATTCAAGGCCAGCTGACAGGCTATGAAATCGGTCATTATCTGGTGAACTCAAGCAAAAGTTCTGATTCCCTACTTGTGGGCTGAGAAGCTCTAGGACTGTAGGACTGAGGCACGCTCACCGCTGTGCTGAAGGTGAATTTGTACAAAGCCACATGCAGTCCCCTCATAACCGTGAGTCGTATACACCAAGCACACAGAAACCCGTGCTTTCTCAGCAGCACTGCTTCTCCCCCCAAGAGAAAAGTATTTCTGTGACAGTGACCAGAAGGCTGTCTGCCAGGCACGGAGACAAAAGCGGGACTCTAACTTACTGCCCTCAAGGGCAGTCACTGAGTCATGACCGTCTGGCTCCTACATTGGCCACTGTTACGTCTGACATGCCAAGCAGAACAAACATTCTTAAATGACCACCAGCCAGGGCAGCCAGAATCCTGAAGAACAGTCAAAAGCCATCAACAAGTGATTTGACATCATGCCTTCACCTTTGTCAACAGTTGGTTTGCTTCCTTGTGCAGATAACCATCAGGGAACACTGTGACTATCCATGACTAGGCTTAGGATTTCGTGTGGCTATTTCTAAACTCCTTTATGTTGGTTAAGTCTGTGTGCCTTGTCTAATATGTCTGCCATAATCCTTCAAGTTCTTCTTTTAGATGGGTGTGTTAGCTCACAACTGTGATCCCAGCACCCTGGGGGCTAAAGCAGGAGGACCATTCAAGTTCCAGGCCATATAAGCTATACAGGAGTTTCGGAGACAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACAAACAAACAAAAAAAAACCTTTCTAATAAGTGATGTTTACAGGGCACATTTTACTTCTATAGGGCTTTCATAGTCATGACCCTGGTTGACCCCTATAGCCCTGCCCCCCGTAAAGCCTGTGGGGTTCTACTATAATTCTGCTGCATTGTCTCTTCTGTGAGGCCAGTTTCCCCATTTCCAAAAGGGCTGCCAATGGCTTCTAAGTTTTACATAGTTCAATTCCGTCCGACCATGTTGAGAGTCACCAAATAAACATTTTTGTTGTTGTTGTTCTTAAATCAGTCTGAGTTCCAGATTTCCTCTGGTAACACTTACAGGGCTAGTTTCTCCACACATGCCTCTATAGTCAGTGGACTGTATCACCAGATGTGATGGATGGTGGTGAACGGCAGAAAACAAGGTGGGGTTGGGGGAAGGTCTTAAGGTCACCTACATTGTGACCATGGTTCTTCCCCAGGACACTGCCCAGACCCTAAATTGGTGTCCCTTACATCTTCTAAGCATCATCTCTTAGGAAATAATAACTTAATCTTTCCTTAAGAGTGAACACGGGGAAGATCAGCACCCTACCCTCCACCTTCTAGGATTGCTCCCAACAGTTTCTCTCTGGAGAGCTCCTGTCTTCCTCTAGTTTTTAGCTTGGTGCCTTCCTTCTGCCCTTTCTCACCGCCTTTCACTCACCGTTCCAATGTGATATGAAGACTCAGGCTCACCTGTTAGATCAGGCACATCCCTTGTCACCTACAGGTAGCAGAAAACCCCGATTCTGCCTGGTTTACCTCAGTGGGCCTCAAAGTTTGGTCCTGCAGGATCCTCTGTGGACTTGTCAGATATGCATATTCTCTGGCCCATCTCCAGCAGTCGGCATTTTAAGAAACCCTCCAAAGTCCCGCAAACACTGATTTAAATGAATAAAATGTATTGTTTTCCATTACTAGAAGTCTAAAGGAGGCCGAGGTTCTGGATACAGTACGGCAAATACATTTGACTATGGTATCTTAAGAGATGGCCTCTTCCTTCCCTCACTGCCATACACACTGTACTGACTCCGCCCACGGCTTCCCTGAGGTGTCTGGCTACTCTTTAAACACAGCAATGCCCTGAAGTCACCAGGCGTCGGTCCTGATCTGTCCTCATATTTAGGAGAAAAGCCTTCTGGAAATCCAACAGACTACCCCACACCAATTCTGCTTTGGGCAGGAGAGTCCTTTGCTGGCGTCAGCATATCTGTCATGGGCCAGAAGAGGCTGTTTCCCTTGGCACACATCAAACAGGACTTCAAGCTCAGGCCTCTTGGTAGAAGCTAAAACTGTATGGAATTAGCAGTTTAGAAAGATAATGCTGTGATACTATACTGTTCCATGTATGTGAAGTTTCTAATACAGTCAGACCATGGCTGCAAAAAAAAAAAAAAAAAAAAAATGCTAACCATATTACATCCTTAATGACAATGTACCTTTCCCACTAGGGGTTCGTGGTAGTAAAGAAAAAGGTCCCCGTGTACCTACCTAGAACTTCCATGAATGGCAATGCTTGGCACGCCCCCAAGCAGCCTTGAGATTGATTGCCTGAGCCAGGCTTATGAATTAGGCATGCAGCTTTGTGGCATGAAAGATGCTCATTTCCATTTTCCCCTGCAG
Seq C2 exon
GTGCGGACTGCCAATGGTTAGACACTCTGCGCATGCGGCAGATTGCATCCCACACTTCTCTACAGCGTTCCCAAAGCAACCCTATCTTGGGGTCTCCTTTCTTCCCTTACTTTGCCAACCAGGATTCCTATGCTGCTGCGGTGAGGAGGACCCAGACTCCGGTGAAGTACCAGCAGATTACACCAAGCATCAACCCTTCCCGGAGCTCCTCCCCCACGCAGTATGGGCTGTCCAGAAACTTCTCCTCCCTGAACCTCAGCTCCAGGGACAGCGGCTTCTCCAGCCTCAATGACAGCTCCTCCGAGAGGGGCCGCTACTCAGACCGAAGCAGAAACAAGTACTACCGTGGTAGTGTGTCCCTCAATTCTTCCCCGAAAGGAAGATATGGTGGGAAAAGTCAGCATTCCACACCTTCAAGAGAAAGATATTCTGGAAAGTTCTACAGGCTGCCCCAGTCAGCGCTGAACACTCATCAGTCCCCTGACTTCAAGAGGAGCCCAAATGACCATGACCGCCGTGTGCCCAGGACCATACCCGGGATGCCTCTGCACCCTGAGACTGCCTCCAAAGCAGGGGAAGAGGAGAGCAGGGTGAGCGAAGGGGGCTGGACTAAAGTGGAATATCGGAAGAAGACACACAGGCAACTTTCGGCCAAGACTAGCAAGGAGAGAACCCGTGGCAACTACCGTGGGCGGCGGAATTTTTGAGGGATTGGGTCAGATGCGCTTTTCCAAGCGGGTTAGTAGTGCTTTGTGCAATGGATTTTTGGTAATAAGGTATCTTGAGGTTATAGGGACCAAAAAAAGACTAGTTCTGGGCTTGGGAAACACCTTTTAACTGAAAGGACAACCAAAGCAGGGCCTCAATTATGGCTGTTAGTCAGTCAACTAGAGGTGGCAATTAAACTTGACAATAACTGCCAATGTTTTGTCCCCTGAATTACTATTGAGGTGGGGAGGGCTATGACATTGCCTGCTGGGAACATTCGAGCAGGCTTGGGGCCAGGATAAAGCTAGTGAGAACCACAGAAAAATCATATTTCTGGACAAAACAGGATTCATCTTATCTTCTCTTTCATCTAAGTTCCAAGATGGCTCTGCAAAGCACTGTGGACGATTCTTGAGTTAAAATTTGTTTTTTGATTTTGGGGTTTTGTTTTTTTTTTTTTAACCTACTGGGATAAAATATCATTTATCTTGATTGCTGAGGGATTTTTTTAAAATGCCTCCCTAAATGTTGTGCCCAAGGCAAGTGCCTCACTCATCTCCACTGTGTTAGTATTTATTTTAGTGAGATATTTGTGTTTTCTGCCATGGTCAGTATTGAACTGATTTGGCTTGTCATTTTTAGGTAATAAAAAAAAAGATTATTGAAGTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004085-B230120H23Rik:NM_023057:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.255 A=NA C2=0.826
Domain overlap (PFAM):
C1:
NO
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:
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: