RnoINT0138505 @ rn6
Intron Retention
Gene
ENSRNOG00000003134 | Slc4a4
Description
solute carrier family 4 member 4 [Source:RGD Symbol;Acc:68936]
Coordinates
chr14:20488288-20491531:-
Coord C1 exon
chr14:20491358-20491531
Coord A exon
chr14:20488450-20491357
Coord C2 exon
chr14:20488288-20488449
Length
2908 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
TTTTCTGATTGCCTTTCCAGATC
3' ss Score
10.62
Exon sequences
Seq C1 exon
TTCATGGACCGTCTTAAGCTGCTTCTCATGCCCCTGAAGCATCAACCTGACTTCATCTACCTGCGCCACGTCCCCCTGCGCCGAGTCCACCTGTTCACCTCCCTGCAGGTGTTGTGCCTGGCTCTGCTCTGGATCCTCAAGTCCACAGTGGCTGCGATTATTTTTCCAGTTATG
Seq A exon
GTAGGTTTTCCTAATTGAAACTATCCACGACTTTATGCCTATCATCTGGTCCTTATGACGTGTGTGGCTAGTCTTCTCCAGCTTTCAACTCGACATGTTGACCAGTCGTAACAAGATTCCCATGCTAACAGCTGCTTAGAATCACGTTCACTTGAGTTCAAATGCTGGCACAGGTTCCTGCTGGTCAGCAACATCCTTGAGCCACCGTGAACTCATCAGTAGGAGGGTAGCGTTGTTATTGTGCTGGGCATTGATAATGAATGCCAAGGGTATAACACAATGTCTGGCAGGCAGAAGGCACCAGAGCACGTGGTTTTTCAAGGTATTGTATAATAGAGGCATTCTAAGGAAGAATAAAGTACACTTCGGCCCAAAGAGTTGAAGCTTTTGTAAGCGTGTGAGAAAAGATGGCATTCACTAGAGGTCGAGGTTCTGAGCTGTGTGTGCTTCGCGTAATTTTCAGGATATGGCTGGACTCTGGTCTTCCTGTATACTAAGCAAGGTGAAGCGAATAACTCTTCCACACACCCCCCCAAATCAAAATGGAAAGAGAAAATGCAAGGTCTGTTTCTTGATTCATTACTGGATTTTATACCTTACTGTAATTCCCCTTCTTGCAAGGAACTGCCCACATATACTTGTTTTGTGTCAAAACTTTTCCTGGGGAGATTCAACACACAGGTGTTCTCACCCCAGATAGAAAACCTACAACAGACAAAAGAACAGATAAAACCAAAGTCCAATCTAGTGAACCAATGAGTTTTATTGGGGTTGCTTTCAGGAATATGGATGAGGTGTTACTTATAGAAACAGAAATTACTCAACGACAACTAGTTGCATTACCAAGGCCCACCCAGCATGGGAGCTGGAGCACACTGCACAGCCTGTGGACAGCTCAGCAGGCTGGAGAGTGTCTTTTCCAGGTGCTCAGCTGGTCTGAGACTCTTCCAGGCAGGTGGTCTGGGCTTGGAGTCCCTGAAATTTGGCTTGTCTGAGAGCCTTCTTAGCAGTTTAGCTCTTTGGTCTGTGAGGAACTCTCAGCTCCTATTACTTATTCTGGCTGGGAGTGGCCTAGTGAATCTGATCAGTTTTAGGAACTTCCTGGAGCTGTTTCAAGTTGTTTACCTCCCTGTTTAAGGATCTTCTTTGTAGCATGGAGTGTTTCAATCTTGGAGGAAACTGTTATATAACAACTCACCAGATAGTCCTCAATGTTGTCTCCATCCCTACAATTCTGAAAAACAAAACAAAACAAAACAAAAGAACCAACAACCATTTTTACACCATACACTTAGCATATTTTTTTTTTAAATCAACTGTGCTCGCTTCAGCAGCACATATAATAAAATCAACTGACTCGTAACAGGGATTATTATCTTATTCTGTTTTATATTTGCTGCTTACAATTGTATTTCTCCCCACTCAAGACATAGGAAAATGGTTTTAAAATTACTGACAGTTTCAAGCAAGATTATTTTTAATTGATGGTCCCTTACATACCTTTTCCCCTTTAAGCTGTATTTACAAGTTGAATGTGAGAAGTGATTCCCATTTATTTACCTAGCAGGGCTTTCTGCCTATATATTAATTTGTTAATAGCAGGAAAACGAAGCCTCCCAAAATAAATTTGAAATATATCTGATAAACTACATATTGCCTATACTAAATATAAGAAAACACTTCACTTTTATAAAGTGTATTTTCCCAGGGCTCAGCTCTCCCTTCAGCTCAGAAGTGGTTTTGGAATGTTAGTAGGGCAGATATTACTGATTTCTTCAGGAGACCAGAGCCTCAAGTATGGAGTGTAAGTGCGGATGGAGCCGACTGTCAGGTGGGAGGCCAACTCCACCACTCTGGGAGCTTGACTGTGTGTGACTTTTGTAGTTGAACATCTGGCATTAACGAGCCTCTATAGTGGAAGGGCAAGCGAGGCAGTCATACATTACAGAAAAAGTCATGTAATGGAATGTGGTATTTGTTCGCTGACTAAAGAAATTAACAGCACAGTTCATAGAACCAAAGAATGAGAAGTAATAAGTCACTCGAGGTCCGAAATGTCTGAACTGATGTCTCATTGGTTAAGAGTGCTTTTCTGCACTTACCACTGCCTATAATTTGACACCCTCTTCTGGTCTCCACCGGTACTTGCACACATTTATACATACACAGACATACATATAAATAACAATAAAATAGGAAAAAATTTCCAAGCAGATAGACTGCTTGTTTTGCGTTCCTTCTTTACTGGTACCACGACCTTGGAAAGCACAGTGTTTGTAAGCTTCAGTTTGCTCAGTGGTAAGATGGAAATATTATATTTCTTGAGTTCGTTATAACGAATAAGTGAACTGATATTGATATTGCCTAAGTGTTCAGCAAGGATCATTTAATTTAAAATAATGACCAATTTTCAGAAACCCGTACAATTTCTAAATGTTCAGTAATCAGGAATCATATGCAAGCTAATTTTTACCTTTAAGCTTTTGATTATTTTATTAAAAACTCAACGTGAGAGGAAATGATTTTAGAAAATAATTGCCTTTCATTCATATTCTGATTAAGTATGGTCATGAGGCTCTATGAATAAAACAAGGTGGGTTTTGAGTGAAACTTTCATCAAACTGACTTTCACCAAACTGGGAAGGTTGTTGGAGGGTCCACTCAGTGAGCACTTCCGTCTGGCTCTGAACCTGCGTGGACTTCTGCTGAGGTTGACGGCATCATCATCATCATCATCATCATCATCATCATCATCACCAGCACCACCATCATCACCATCACCACCACCACCACCACCACCATCACCATCACCATCACCATCATCACCAGTAGCAGCAGCAGCAGCAGCAGCAGCAGCGGCATCCCTGAGACATCCTCTGACATGCCTGTTTTCTGATTGCCTTTCCAG
Seq C2 exon
ATCCTGGCCCTGGTAGCTGTCAGAAAAGGTATGGACTACCTCTTCTCCCAGCACGACCTCAGCTTCCTTGATGATGTCATTCCAGAGAAGGACAAGAAAAAGAAGGAGGATGAGAAGAAGAAGAAAAAGAAGAAAGGAAGTCTGGATAGCGACAACGACGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003134:ENSRNOT00000004391:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.417
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(6.5=58.6),PF103594=Fmp27_WPPW=PU(0.1=0.0)
A:
NA
C2:
PF103594=Fmp27_WPPW=FE(68.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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]