MmuINT0147218 @ mm10
Intron Retention
Gene
ENSMUSG00000068323 | Slc4a5
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 5 [Source:MGI Symbol;Acc:MGI:2443220]
Coordinates
chr6:83297219-83300538:+
Coord C1 exon
chr6:83297219-83297383
Coord A exon
chr6:83297384-83300470
Coord C2 exon
chr6:83300471-83300538
Length
3087 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
GGCTCCTCATTTCCCTCCAGGAA
3' ss Score
9.41
Exon sequences
Seq C1 exon
ATCCTGGGCCTTATCATTGTTCGAAGGCTCCTGGACTTGATTTTCTCCCAGCATGACCTGGCCTGGATTGACAATATCCTCCCAGAGAAGGACAAAAAGGAGACAGACAAGAAGAAGAAGAGAAGGAAAGAGGTCCATGAGACGGCAGAGAAGGAGGTGGCAATG
Seq A exon
GTGAGCAGTCCAGGGAGAGGGCAGAGACTGAGAGACTCGGTTCTGCCAGGATGAGGGGTGTCTCTGTGGGTGGTCTTGGGTGCTGAGACCCCATGTGTTTCTGGAAATGTCTTCAGGATGGTCAGAGCTAGTGAGCTGACTTGCCTAGAAGCAGACAATGGCTACTACTGTGGGTTCTCAGGACCATTTTCAAGTCCTTCTGTGGGTTCTCAGGACCATTTTCAAGTCACTGGGGCAGAAGAGGCTCTAACATAGAAGGTAGTTGTAAGGAGAATTGCCTGAGAAAGGAGCAGGTCTGGGGAGAGGGTCCAGTGGGAACTCACATCAGGCCTGGACTCCAGGGGTGTCACCCTGGTAACAGCTTAGCTTGGGCTTACCTACATAGGATCAGGGATAGAAGTGGGAGAAAGAAGACTTCACTGAAGGTACAGTGACCACGTGGTTGCCCCGCCTACTCGTCCCCTCTCCCATGCTTCTTTCATCCTGGCCCTAAAACACTCAGGAGTTGAGAGCCACATGTCAGTCCACGATGTACGGTAGGCACCAAAACTCCAGGCAGAAAGATTCAAACACTCACTACAAATGGTGGAAACTCTTCCCCAAATGGAACACAAACTCCCAATATGGCTATATAGCCAAGTCTAAGAGAACTAAGAACCGCATTCCTGCTTTGATGACCCCTTTCCTGGCGCCATGCCAAATTCCTAGTCTTTCCCCATTTACCTCAAATCCATAACCTTCACCTGCCCTTTGCCAATGAAAACTGTTCACAGGCAAATCTAACTGTAATGACTTCCCCTTCCTAAATGCTGCCCTCTTACAGGAGAGAGCCTATATGTACTTTAACAAAGGAGGGGGGAGCTCTGAGTCTGGGGATATGGCTCAGTTGGTATGGCCATAGCATGCATGAAGCTCTGGGTTCTGTTTCTAGCACCTTATAAGCCAGGCATGGCCATGCATACCTGTTAGCTGACGTTGAATGTTGGCTCAAGAGGTTGAGACAAGAGGACCAGAAATTTAAGGGCATCCCCAGGCACATAGTGAGTTTGAGGCCAGCCTGTAGAGGGAGGGAGGTGGGGAGGGATGAAGGGAGTAAGGGAGGGAGGTAGGGCTTGGGTCCAAGCATCTTATTTTATTTTAAGATTTATTTTATTATGATGTATGTACTGCTGGAGCAGTGTCTGGGTGTATGAACCCGGCTGTGAGCTTGTGAGAGCAGGTGCCTGTGGATGTCAGTAGGGAACGTCAGATCCCTGAGGCTGGAGTCACAGGTGATTGAGAGGCACCCAGTGTGGTGCTGGGAACCACACTCCAGCCATGGCAGCCAGGATGCTTAGCTGCTGAACCACCTCTCCAGCCCCGCCCTCCGCCAAGGGTCTTTTTTGTTGTTATTTCACGTACATTGCTGTTTTGCCTGCTTGTGTGTCTCTGTGAGGGGTGTTGGAACAGCTGGAAATTGAGTTACAGACAGTTGTGAGCTGCCAGGTTGGTCCTGGGAATGGAATCCAGAATTTCTGGAAGAGCGGCCAGTGTTCTTAACCACTGAGCCGCCTCCCCAGCCCCTCACCAAGTGCCTTTTAAAAACAAAGACGTTTTCTTTGGTTTCTTCAGTAAACTTCTGAGTAGCTCCCATGTACCAGGAGTTTCTCCAGGTCTGAGGGAAACCATCTCAGCATTTTATGATACATAGACTCAGTAGAAGAATGAAGCTTGCGTCCCATACACCCATCTTACAAGTCTCTTTATGGCGATGCTGCTATAGTCTGAGTCACTCACAGTGACCGCTTACACAGCAGACTGTACTCTTTGGAGAGACGTTGCTGGCTGAATTCCTTGCTATGTCCTGGGCCGTAGAACAGTGGGTAACTGTGCCGTGGTGGCTTGGTGGGCCCGAGTGTTTACTGAAGCTCTCAGTACTTGGTCTGGGTGGGAAGAGACTGGTGGCTCCCACACGGTGCCTGTATGCATCTTGCTTGCCTCTCAGTGAGGAAATCTGAGTGGTTGTCTTGGTGTTTATCTGCTTTCCCGCTGTTTTTCTCCAGCCCCAGTTCCTTCCTCCCTCAGTTGTAAAGATCCCCATGGAAGGTATCCCATCTGATCCCCAAAACGGTATCCACTGTGTTGCCAGTAAGTAAAGCCCCTGCTCTCTCCCTTCCTACTCACTGCCAATCTTCCAGCACCCGGTGAGGGACGTCCCCTTGTAGCTCAGTGCTCTACTTGTTTTAGATGATGAGGATGCTGTGCCCGGGAGAAATAAAAAGAACTGGCCAAGAGCATGGGAACGCCACCATGTGCAGACACCCCTTTCCCGTAAGAGTATCTTCCAGACTTCGCTTTAGACAGGACCGCCATTCCTGACTTTCCTCTGGCCCCATGGCTTTGCTGGTCTTCCCCTTCATTGTTTTAGAACACATCTGTCCGACTATGGCCCCCAGTCTCCCACATCTTCCTGGAACTGTGACGATTGAGAGTCCCAGTCATCATTCCATATTAGAGAGACAGCCATGAATGAGTGCAGCCCTGGCATGGCGCTGTGATCCTGTGAAAGCCACAGGCAGGCACCTGCCACTGCTGACCGGGAGCTTGCTTGGGAAAGTCAGCTTTGCTCATGAAGACCCTTCTAGCTCCTTCACAGTGTCTAGTTCTTCCCCAGTGATAGACAGTCCAACCTGCCCTTGTAGTCTTCTGCAGGTTGTAATGGAGCCCTGATCACAGATAATGGAGGATCCTATCAGAACTTGTCACTCTTCTCAAAGACAGGTCAGATGCAGGGGGCCAGCATGGGCCCTTGAGGGCTCTCCATCACAGCACAAAGTCACTTGAGGTTTCTTCTTCTCCTGTCCCACATTCTGTCCTCCTCTCAGTCCTGCCCTCCCCATGCCCTTCCTAACCAGCTAAGAGCCCCTGTGTGAGGTGTTGAGACTGAAGCCACCCATCCTCTGTGAGGCCCCAGTATTCCTTCCCCTTGTGCAGTGTTGGCTAGGGCTGAAGAGCAGAACACAGAGTGGGTGAGGGGGTTCTGGATAACAAGACCGTCCCCGGTACCCTGCTGGGCTTGCTCACAGCTGGCTCCTCATTTCCCTCCAG
Seq C2 exon
GAAAAAGATCTTCCAGTTGGAGTTACTCTCTCTGACTCCTCCATCAGTGGCTCAGAACTGGATCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000068323:ENSMUST00000113899:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.283 A=NA C2=0.011
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
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