RnoINT0138585 @ rn6
Intron Retention
Gene
ENSRNOG00000028879 | Slc4a8
Description
solute carrier family 4 member 8 [Source:RGD Symbol;Acc:735164]
Coordinates
chr7:142428315-142432902:+
Coord C1 exon
chr7:142428315-142428475
Coord A exon
chr7:142428476-142432713
Coord C2 exon
chr7:142432714-142432902
Length
4238 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TTGGAATCTCTGCTTTCTAGACC
3' ss Score
5.26
Exon sequences
Seq C1 exon
GTGGCTGAAGTTTGAAGAGGACGTGGAGGACGGGGGAGAGCGCTGGAGCAAGCCTTACGTGGCCACACTTTCTCTGCACAGCCTGTTTGAGCTGAGGAGCTGCCTCATCAATGGCTCCGTCCTCCTGGACATGCGCGCAAGCAGCATAGAGGAGATCTCAG
Seq A exon
GTACCCGGGCAAACTCCTGGACATGTGCATAAGCTAAGGAGCTCTTAGCTGCGGGGCAGACGGTGTCCTCCTAGACATGCGCACAAGCAGCATAGAGGAGATCTCAGGTATGGGCAAACTCCTGGACATGCGCATAAGCAGCATAAATGAGCTCTTAGCTGCAGTGCGGACGATGTCCTCCTAGACATGCGCACAAGCAGCATGGATGAGATCTCAGGTGCTAGGCAGACGAAGGCTGGGCGCAAACCCGGAAGTGTGAGAGCCGGGCAGTCTGGCACACACCTGTAACCTGACGTTGGGAAGCTGGAGAGCAGAATGTCAGGTCTGAGGTCTGAACTGTAGTGATACTTTATCCCAAGCAAAACAGAACAGAACATCGAAGCCAGGAAGGAAGAAAACTAAAGGGCCTGCGTGGGTAAAAGTGTTCACTGTGCCAGCTGGGCAGGCGACCTCGGTGCCATCCCAGGAGCCTGTGTCAGAGGACTGGCTTCTGGAAGTCGTCCTCTGACCTCTGCGAGCACATACACACGCTCTCACACGAGTGCTCACACGCACTCTTGCGCTCTCACACACTCACACACTCACACAATGCTCATACTTGCACTCTCACACATGCACACACACACACACACACACACACACACACACACACACACACACACGGTCATAGTAATAATGCAATACCTTTTAAAAATTAAAGATTTAAAAGCTCAAAACCTGTCCTCTAGAAGAGAGGTTCAGGAAATGAGTCACAGCACTCCACACTTGAGCCTGGAGTGCTGGGTGGCCGGTCTGATGGAGTCTTCTGACGTAAACAGATATTAAGTTACCGTGTTTAGGGAGCAGCAATAAAGAACACACATGTCTAAGTGATTCTGCCTCTCCAAGGATCTTGGGGACCTGGAGACTGAGGTCAGTACTGATAGAAGTCTCTGTCTACTCCTTTGAAAGGTGGTGCCTGGGTGTACCACCTACTGTGGGGAAAGTGGAATTAAAGAAAAAAGTGAGTTCTGTGCTGTTCACTGCCCCAGAGGCAGCGGAACCTGGGAGAGCGGAAGCCATTAATGAGCATCAGAGAATTCATGCTGAGGGTTAGATTTATATGCTAAGGGTTAAGAGGCGTCACGAGTCAAGTGTGTAATCAATCACAATCACAAGGTTGCACGTGGCGGGCAAGCCTCTGCACAGTGAAAACGTTTTTCCATGGAGACATATAGACAGACAACAATAGCCAGGCATACTCAGTAACCTGGAGTGAACTCAGTGCCGTCTGTTACACCTGGCACATTCCCACTCTGTGGTTTTGAAGAAACTGAGGTCACAAGACTTGGCTTCTTGGAGTTTTATCACGAGCACCTCACACAGCTCCGTTCTTGGACTGTTCCAAAAGGGTCACAGCTGTCTTTCACTGACTTTAACTGCATGTCTAAGCGCCTGCGGATTCCTGAGAGAGCATGTGCTGGGTTCTGGGTAGAGGAATCCCTGGGAGTTAGTGCCCTGTGGCTGCCGAGCAAACATAGGCCAAGCCTTGGCGGGGTGATGCCTCATCAAATTAGCTGTAAGAAAGACGGAGGCCTTCGGAATGGACAGGGTGAGACGCTGCCTGCAGAAGGGCACGGTTGCCAGTGCAGCTCAGGAGGTAGAATTGATGGTAAGAATCTGACAGACTGTTTTAGGCATAAAGGAAGAGTGCAGGAGTCTGGCTTCCAGCCAGATCACAGGAGCGAGCAGGTCGGGTGGGTGGGAAGAGGATGGGCTTGTTTTGTACTCGCTAAGCTCTACGTGTGCAGCCCACCCAGATGGCGGTGTCTGCAGGTAACTGGAGCTGCCATGACACTTGGGAGACATATCTGTAATGTGCCTCTAAGTCTTCTAAAGATGGTTGAGGCTATTGCGGTCAACAGTGGGGATAGGGACTCTTCCTGTCTGAGGCTGACTTGGGGGGTCATAGGTCAGGTGAAAGAAAGGTGTTGTCCTTGGAGACCAAGGGTCTGCAGTGCTCAGCGGTGACACAAAAATCAGACAACAGCCACCAAACCTGTGTTAGCCTAGGACGGCTGGGACACAGCTCCTTGAACGTGGAGGCTGGCGTCCAGCACTCAGAGGTTAAGGCAGGTAGATCAGGATCAAGATTAGCCTGGGGTAATAGCAAGATCTTGTCTCAAAATAAAATCAACAGACCGATCAAATGGTAAGTTTGAAATTCAGAAATCTGAAACGAGTTTTAGTTTGGGCTGTGTTCCTCAAAGGCCCACAGCGGGAACATTTCTCCTTGGTCCTTCCAGCTTCCGGCATCTGGGAGGTGCTTTTTGACTGAGGATTTTCTTTTCTTTGAGGAATTTTAAGAGGGAAAAGAAAAGATAAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCGAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAAGAAAAAAAAGAAAAAGAAAAGAAAAAAACAAAAAAGAAAAGATAAAACTAGTAGAGGGGCCTGGGGGCGGGGGGTGTGTGAAGGATTCTGAAGCATGATTGTATGAGGGAAGAAATCAACCAAAATAAAGGTGAAATGTGCAGGAGTGCGGTCCGGGGAGGCCTGCTCACAACTGGAACCGCAGCACCTGGGAAATAGAGAAAAACCAGATGTTCAAACCAGGTGCCCAGGCATTCAGTAACAGCCTTCCAGGTGGGCATGGCGACCTTGACCTCTGTAGGTCGGGGGCTGTGTACACAGTGAGGTATAATCCTGGGGTAGATGGGTCAAAAATGGAACTAGCAATAAAATATAGGGCCTGAAACTCTAGATTTATCTAGAGTCCTGCTGACAGTGCCAAGTGAGGGCCTCCCATGCCCACCCAAATCACTGGGCTTCATTAGTTTCCATGCTGGTAGTTGTCCTGGGGGGAGCAGATAATTAATATAAATGATACATTTTAAAAATCATTTCATTGTGAATGCATGTGTTCGACTGCATGCATGCATGCTTTTGAACCACATGTGTGTGCTGCCCAGAGAGGTCAGAGCGGACACTGGGTCCCCTGGAACCAGTCACAGACAGTTGAGTTGTTATGTGGGTGCTGAGAATTGAACCTGGGTCCTCTGTAAGGATGAACAGCCTGTACTCTTAATTACTGAGCCCACTGTCGAGCCCCAATTTAATTTTTCTTATAGGTTCCACTTTCAAATAGCCACTGGGGCTCCTAGTTGCAACGTCCCGGACGATTCCATCCATGCTGCGTTCTTAGAGGAAGGGACGATAGAGAAAGAGTGTAATCTCGGGTCTCTGAGTCAGCCAGGCCCGGTGTGAACCCTTGTGTAATCTCGGGTCTCTGAGCCAGCCAGGCCCGGTGTGAACCTTTGCTCCTCAGTTTAGCAGGCGAGAAGGAATGGTCTGATTTGGGAGTGCAGAGTACTTACTGTTCTTTCAGAGGACCCAAGTTTGGTTCCCAGGGCCCACGCATATGGCTCCCGGCCACTTGTAACTCCAGCTCCAGGGGATCTGATACGCTCTTACAGTCTGTATGGACACCTGCGCACGTGGCAGACACACAACATAAGTAAAAGCTAAAAAGAAATATATTTTAAAATAGAATTTAAAAATTATCATAAAAGTACCACTGTGGGCACTTATTAAATGCCCAGAAGACTTTGTTTCCCAAAGCAGTGAGATGAGCTAAGCTAACAGCATTTGTCACCATCTAAGTCTGACCTTAATTCTTTTCAGATTTATTTTAATGTGTGACTACTTCATTTGCATGTGAGTGTGTATACTACCTTCCTGGTGCCCTCAGTACCCGTAAGAAGGGGTTGAGTTTCCTACAACTGGGGTTACAGATGATCGTGAGAACCGTTTGAGAAACCCATGTGGGTGCTGGGAATCGAACCCAGGTCCTCTCTAAGAGCATCTAGTGCTCTTCACCACGGGGCCATCTCTCCAGTCTGTGTTAGCCCCACTTTTGCAGGAGGGTCACCCGGGAGTTCACGCGCAGCCTAGACAGCACAGCGGTAGCCCATCCCTAAATGCAAGCTGTGTTTCCGTTGCTGAGTGGATGAGGGAAGATGCTTCACAGCTCCTTCAGGCAGGAGGCTGGAATCACCATGGCGATTGTGATTACGGAGCAACTTGCCCCCACCGACCGATGCTCCTTTCCCAGCCACCTGATTCGGGTCCTCTGGGTTCCTGAACTCGAGGTTTGAGTGTTGATTGGAATCTCTGCTTTCTAG
Seq C2 exon
ACCTGATCCTGGACCAGCAGGAGCTGCTCCGGGACCTGAGCGACAGCGTGCGGGTTAAGGTGCGGGAAGCCTTGCTGAAGAAGCATCACCATCAGAACGAGAAGAAGAGGAACAACCTCATCCCCATCGTCCGCTCCTTTGCCGAGGTCGGCAAGAAGCAGTCTGACCCGCATTCCATGGACAGAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028879:ENSRNOT00000040890:5
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=0.250
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(18.1=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(24.2=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]