RnoINT0138383 @ rn6
Intron Retention
Gene
ENSRNOG00000020951 | Slc4a1
Description
solute carrier family 4 member 1 [Source:RGD Symbol;Acc:3710]
Coordinates
chr10:90296141-90298752:-
Coord C1 exon
chr10:90298579-90298752
Coord A exon
chr10:90297715-90298578
Coord C2 exon
chr10:90296141-90297714
Length
864 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CTTCCCTCCCACCCCTCCAGCTG
3' ss Score
10.29
Exon sequences
Seq C1 exon
GTGAAGACCTGGCGTATGCACCTCTTCACGGGCATCCAGATCATCTGCCTGGCTGTGCTGTGGGTGGTGAAGTCCACGCCAGCCTCGCTGGCCCTGCCCTTTGTCCTCATCCTCACCGTGCCCCTGCGTCGTCTCCTCCTGCCGCTCATCTTCAGAGAGCTAGAACTCCAGTGT
Seq A exon
GTGAGTAGTAGGGGGCCCCGGATGGGAGAAGGACCCGTAATAGGAATCGAGTGTCTCGGAGCTGGGGAGATGTCCAAGTGAGGCGGGTAGGCGTGGGTTTAGGAATAGATGTAGTTCAGTTGGTAGAATGCTTGCTTCCAGTGCACAGGATCCTGGGTTCAATTCCCAGCACCCCATAGATTGTATATAGAGGTGCATGCTTATAATCCCAGCGCTAGGGAGGTAGAGGTGAGGGAATAAGAAATTCTAGGTCATCCTTGGCCACGTGGTTCAAAGCCAGCCTGAATTTACATAAGACCCCTTCTTAAGAAGAAGGAAAAAAAAAATCCAGGTCCTTTGTGTCCGTCTTGGTCTGCTGTGTCCTAGCATATGATCTGGAGCAAGCGACCTCATTTCCCTCCCCAGTGCAGTGAGGAATCATGACAGGCTGAAAGCCTTCCACGGCATAGAGGGCATGTCCTACCCGAGCTGCTGGGCCATTAGTTGTATCATCGGCCGAGTTATTCGGTGCATTCGGTGTGGGGCTGCCATGGTGAGGGGAGCCCCCGCTGACCTTTTGCAGGCTCTCCTCACCAGAACTCCTTCCCACCTCCTCTTCATAAACCAACCACTCACCTCGACCAACCCTGTGCTCTAGGGACAGCACGGGGTTTATCTAGGCTGGTTCTTACCTCTAGAGGCACCTCTTAAGTCCCAAAAGGGCTCATCCTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCACTTGCCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGGAAAGAAAAAAAAAGGGGGGGGGGCTCATCCTGTCCTGGTCTCTCACTCTTCTTCCCTCCCACCCCTCCAG
Seq C2 exon
CTGGATGGTGATGATGCCAAAGTGACCTTTGACGAGGCGGAAGGGCTGGATGAGTATGACGAAGTGCCCATGCCTGTGTGAGGGGCAGGCCCAGGCCCCCAACCACTCCACTTTCCCACCCTCCTGGGAAGACCATTCATGGGCATGTCATGGCTGTGGGTGGGGAAGGAGAGGTTGTCTAGGAAACTCTCTACATAAGGTATACGGGATTTTCTGGCTGGAGACGACCAGAAGTTATATCAGGGAATTGGGGTCACAGTCTCTTGCGACTGTACGGGTCCCATGTGGCATAGTTATAAATAGCAAAGGGGAGACACTTTTCAAGTTCCTGCTGGCTGTGTGGCCTTAAGTAAGTCCCTTGACCTCTCTGGCCTCTGCCCCCTACTCTATAGAATGTATGCATTGGTAATAATACCCATGTTACCGGCTGCTGAGGACCAAGAGCAAATGTCTAAGAACTATTACAGTCTTCATTGTTCTCAGAGCCTGCCCAGATCACACAGCCCCCTCCCCCCCACCCGGGGCCACACAGCAGGGACCTGAGCCTCCTGACCTGGAGGCTACAGCTCTGTCCTCCGTCTTCCCAGTCATGCCCAGAAATACCCCTAATGTCTTCCATTTTCTGTCCCACCCCCACCCCAAGTCTCCCTTCTCTGCATCTAGAGAGATATTCTGATGAGAGTAAGATACAGGTGAGGGACTGAGGCTCGTATTCCTAAGTACTTGCTCTCTCTCACCAGGTGTTCATTCATTCATTCATTCATTCATTCATTCATTCATACATTCCATAGCCATCTACTAAAGGCCCTAGACCTAGTGGACACAGAGGGGCTGGTTCAAGCTTCTTTTGCGGGGTGAGGCCAATACATAAGTCTGCTCTGGACATGGATGGGGATAGCGGGAGGATGGGAGGGTTGTAATTTATTAACTGTGTATTTTCTGAGTGCTTCTTCCGTGCCTTGGTTTTGCCCACACACTCAGCCCTCATGAGAGACTTGCTGTGTCCAACCCCAGCTAAACTGAGTCTTGGGGGAGCGAAACCCAAGTTTTGACCCATTGGAGTAGGAGACAGTAGCTTGTTCAAAATATGGATAAACAACTATTTTTATTTTTGACAAAGCAATATATTTTTTTTAAAAAAAAAAAAAGTTGAAAGAACCAGAACTTGAGAGAAGAAACAGAAGATCTGAGTGATCAGGCAGCAGGGGGCTTCCAGTGGAAGATGCTGGGGGGGGGGATTTGAGAGCCCATGTTTGCCTCCCAGGACTGCCTCACCACAGACTCTTGTTCCCTCATCATAGAAATAGGGACAAGGATGCACCTACCTTGTAGGGAGTTGGAAGGATTGACTGACACCGTATAAGAAAAGCATTTGCAGAGCACACAGCCTTCCTTGTGGGGAGTTGCTGATGTGACCACGCCGCTGGGCACACCCCTATCCTCTCCTGCCTTTCCTACTCCTTGAACATTACCAAAGAGAGTGGGGATCCTGCTGCCCACTCTCCAGCGCCCTTCCCCACCGCCGTGCTTGGGAATAGGTTTTGCCAATAAATGTGTCTGTGTTAAAGGGGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020951:ENSRNOT00000028445:19
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:
PF0095516=HCO3_cotransp=PD(3.9=19.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCTTTGTCCTCATCCTCA
R:
AGACTGTGACCCCAATTCCCT
Band lengths:
342-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]