GgaINT0077113 @ galGal4
Intron Retention
Gene
ENSGALG00000011604 | SLC4A4
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 4 [Source:HGNC Symbol;Acc:HGNC:11030]
Coordinates
chr4:49780445-49785449:+
Coord C1 exon
chr4:49780445-49780606
Coord A exon
chr4:49780607-49785352
Coord C2 exon
chr4:49785353-49785449
Length
4746 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGG
5' ss Score
6.35
3' ss Seq
TTTACACGTTTCTTTCACAGTCT
3' ss Score
9.46
Exon sequences
Seq C1 exon
ATCTTGGCACTTGTAGCAGTCAGAAAAGCCATGGACTACCTCTTCTCCCAGCATGACTTAAGTTTTCTTGATGACGTCATTCCAGAGAAGGACAAGAAAAAGAAAGAGGATGAGAAGAAGAAGAAAAAGAAGAAGGGCAGTCTGGACAGTGACAATGAGGAT
Seq A exon
GTAAGGAACTTCTCTGCTTTTTTTTTAAAACTACTTATTTCTGGCTAAGCCTGGGTGATGGTTCTGTGCCCTTCCCCAGCTCTGGGGGTGGTGGTTTCCCCATCCTCTTTTGAAGCAAACCAGCACAGTCCTTACCTGTTGCAGCAAATGAGCCCCAAACAAAACCTTTTCAACACTACCTTCCCTTTTCCAGGCATCAGCAGCCTGTGGTAGGTGGAACTTGCATTGCCAAAAATGCAATCACACTTTCCACAAGAGCCCAAGATATCTGCTGACATGTTATGTCATTTACTAGAATACTTTGTATCATCCTGTCTTGTTCATCTTCCCCTCCCTCCTCTGCCTTTCTCCCCTGATTGTCTCTTACGTTTTAGGAGGAGAGAGGTTTTCGCAAGCAGCTCTGATACTTCTGAAAACAGCCTGTTTTGTTCTATTTTCTAATTATTCTTTTTAGAAGCACAAAAAGTTAAGACCTGTCATGTTTCAGGAAAGGCTTTGTTGTCAGTTGTTAATACATTTAAATAGCATACATGCTCTTTATGCAGTGTATTCTACTCTTTGCTTCTATCTCAGGTTGCAGCATATATATATCTATAGAAACTGTAATAGTTTAACTTGCCTTACTAACGTCAATACTAAGTGTGGTGACCTGATTAGACCAGATCCGTGTGCCTTAGAAACTGATACTTTTTATTGTAGATGTAGTAAGAGGAAATGTAGTAGTACTTGTGCCTTCAAACATTTTCCTACCCAGACCTCGTGTAAACTCAGATTCTATAAACTTAAATGAAAGTGGTGAACACACTGATTACAGAGCACTTCATACAGAAAGTGTGAGCTTCCTTTGGAGAGCTGACTGCTTCAGTCTGCATCATTTGTTGCGGGATGACTGTGTACCAAGGGAGCTAAGCTTCATTAACAATGAGCTACACGGAGGACACTGACATAGCATCAGTAGTTCTGCTTGTGTAATTTTCAGAGTTAATGAAGAAGGGCTTTTCATGTGATCTAGACAAAGTTAAGGTCACCTGAAGCTGGAAAACACCACATCTATACAGAGCAGGAGAAATAAATGAGAAGGCATCATGCCTTGGGAGGAAAAGTCAGCTGACCCATTCTTGTACATTCACACCTAGCTCAGTGACCTGCAGCCAGGAATACCCAAGTTTTGATGTCTGGTGTGGTACGACAGAGAAACAGCAACATCAGTTGTTTGCCTGCTTGCTCCCTGGCCTTTTTAGCTGATGCAAAGTGGGTAAAAGCAAACTCAGGAAAAGGGAACTCCTGAAGAAATAGCTGCTGCATCAGTGTTATTTCCCAGAAGCATTTGTTGCAGTGAAGCCTTAAGGAGAGCGCAAGCAAGCCACAGTCAGCTGTGGGAAGCACTGCTGCCACCACGCTGTAAGGTGACAGTACAGCAGAGCAGTCCTGCAGCACTTCTGCTGTGTTTCTACTGTGTATCATCTGTATCCTTCCTGTACTCAGCAGAATCGACACACTAGCCCTATTTATGCAATCAGCTGGGTTAGATAATAAGTCCAGTGTCTTCAAGTGTAACATGGCAGCTCTAAGAGTTCCTCCAGATCATTCTGATGCCTGACCTTACTCAAGGTTGATAGGACAGAAAACACAACCATGATCCACGTGGAGAACACGCCAGAGCTCAAGACACTTACATGACAGCTGTGTTAGAGGCAACAAAGTCCAGCTATTCCAATGATAAAATATACAGTGGTCTTTCCTCAGAGAATATACACTCTATAATGCAGGTTGTGGCTCTATAATGCAGAAGTTGTGCATAAATATACACAACAAGAGTCAAAACTAGGAATTTTGTAGTGAGGGTGCAGCGACATAGGAGGTAGCCTGGATCCACTCCTCATTAAATCAGGCTGAATCCCAGCTGGGAAGACTGGTCCTTATTTCAGACAGCAAGCTCCCATTTCCCTTCCTTCCTAGCAGGCACTGGCCATTAGACTACTCTGTTCCTGCACTCTTCTATCAAGAAGTCCCGAGGACACATTTGTTAGCAGTACAGGTCCTGCTGAGACTTTCAGCACATGTCCGTATAACTAATAGGGGATGCAGAAGCTTCAAGCATCAGGAAAGCTCTCACCTAAGAACATGCTGATGAGACCCAAGACTTGTACGTTCGTTATTGGTGTCACATCAACAGGAAACCACGTGTGCACATTCCCACGTTGTCTCTCTCTCAGCTGTGGGAGACAACATAAAAATGTTTTTTCTCTTCTGTTACTCCAGTGAAGCAGGATGTAAAAATTCTGACACGTTTCAATAGTGTGCCTTCATCTGCAAGCTACCCTGCCCCAGGATATGTGCATTTACGTACTACTGGGTGTAGAAAGCAGTTCCTTGCAGAGGCTCCCTTTTCATTTTAATGGCTGTCACTCCTCCAGCATGTGGAAAGCCAGTGTCAAGGGTTTCCTTCAATAAATACATTTGTATGATTCAAAGTGAAAGAAGATGTCCTGCTGTACATACAGTCAACAAAGGTTTGATTCAGTTCCTTCATTATGACTGATTTGAATCCAGCAGCATAGTATCCTGAGCCACATCTCCTGTATCTCTGGTGTATTTTAAGCTTCCTAGGCTTTCAGGTACAGTACTCAATCAAGTGGGTAACAGAATTTATGCAAAATGTTCTTACTTAACTGTTCTTATTTTCTTTTCCAGCACTTGCTTTTGTCAGCTTCCTGAACGTAAAGCACTTGGTGTTATTATTTTCACCCTTTCCATTCCAGAAAAGCACCTCCATAAAGTTAGTACTGTGGGGTTTTGCAGGCATTCTGCTGATACGAGTGGAGTGAAGAGAATTGCTGGACATTGCGAATTCAAGTGGTGTTATGTAAACAAGCACAGCAAAACCTGGCACTGGCATTAACAGAGACTAATCTAGCATGAGTTAGGATTTACTGTTAGTTCTCACTGGCGGTTTGCTAGCAGTCAGGGACAGCAAGAAAGGAATTGCAAAGAAAGTTTTTCAGTAGCTTCACCAACTTGGTTTTAGCAAGTCAAAATTACAGTCGCTAGTTGCTGGATTTACCTAAGCTTGTGTGTAGTGGAAAGTTGAATTTTGTCTCAGATTTTATGTCCAAATGCACGATCCAAGGAGGGCCAGCCAATTTAAAAAGAATACACCGGGATGTTATATTTAGTTTCAGAGCCAGAAGTGGTGTGTGACAGCCGCTTCTCCCCTTCAGGGCACTTTTGCCAACCACAGGCATTTTCTCTATCTCTTTGTTCATTTTACACAGTCAAGTTTAAAGCAGATGAAGCATCAGCACTCCCATTGCACAGATCTTCTATTTATTAGCACCAGAACAGTGATATGTTGGATGGCTCAACTCTTAGCTCGCTTACAACAAAGCTCCAAATGGATGGGAATTCTGGTATGGCTTTATTGCCTCCGTGTCTTTTTAAAACTTATTCAAGCTATGCTCATATATAGCTTTGTAAAAAATACATAATGCACATATGCATGCACACATGTGAGGAAATGTTTTGCTGGTGAGGTACACACACAGTATTGCACTGGATGTCCGTAACACTAAAAAACAAAACAGAAAAGAAAACAAAGAAGAAAACCCAGGGAGAGAGATTTTCTGGCTTCTTTAATGTTTTCCTACTCTGGCTCTTAGGTCTTATTCCCCCCAGTGCAGCGCTATACTTCATGCTGTGTCTAGTTCTCTCCAGGAACAAAGATATGTTAGCATTTCTGGCACACATCACCTGGCATGTATCACCTTAATTTCTTTGCCAAGTCAAACAGTATCAGCCTTTCTTTGGTTACGATAAACTGTTTTACAAAAAAAAAAAAAAAAAAAAATAGAAAATGAAAAGCCAAGTAATTCAGTACCTTCTAAGCACAAGCAAGTGGTTTATTGTTGGAACCGGTGGGGCATAATCATCAAACTCCAGGGGACTCAGTGGTTATAAGTGTGCTCATAATTTGAGCAAAAGCTTGCTGACTTCAGCAGAAAGCTATCTTGGAGAAAGGCTTGCTAACATACAGCTTTTCTCTGCACTTGTAACTCTTCTTCAACAGTCTGCCATATCTCCTGTGTGGTGGGATTACGTGAACTCTTAAAAGGACCCTGGCTTTGATGAAATATCTTATTGTAAACAGAGGTGTAAGTGGGACTGGGTCTGACTATATTTAAGTGATAAATTAAAAGAGGAGTTGAAACAATGGAAGTTAAAGATTATCTGCTATATTCTGTCTGACACTCTTCCTTGTAGAGCAGTTTGGAAGGAGAAAACAACATAGAGATTGTCTTGCCATAATTTAGAGGAATCACAATAGGAATCAAAACTTTTTGGTGAGATTTCTCAGAAGCCAGTGCCCTATCATTTCTGCCAACAAATGCATGTTTTAATCCATTTTTATTTCCTGCAGTCAACCCCAGGCTGACTCAGATGGTGTCTCACAAACTGGTAGCATAGGAACTGGTGAGGTGGAGAGAGGAAAAGATAACGCTTACTTAGATAAGATTATTCTTTCACTCTGCTTTACTTCCATAGGGTGAAGAAAGAGGGAAAGTGAGGTGCAAGAGGGATCCAGTTTAAAATCAGGCCACCAGCTGGGCTACAGAATTCCTTTATTATTATTATTACTATTTTTCTCCTAATTCCTACAGAAATTATGTGAAGGATAATATTAATTTATGGGTGACAGTAAGAGAGCAGTGGAAATTTTCTAAGAACTTTTACACGTTTCTTTCACAG
Seq C2 exon
TCTGACTGCCCCTACTCAGAAAAAGTCCCAAGTATTAAAATACCAATGGACATCATGGAGCAGGAACCTTTCCTAAGTGATAGCAAACCTGCCGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011604:ENSGALT00000018948:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.273
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]