GgaINT0077111 @ galGal3
Intron Retention
Gene
ENSGALG00000011604 | SLC4A4
Description
NA
Coordinates
chr4:51862518-51864448:+
Coord C1 exon
chr4:51862518-51862586
Coord A exon
chr4:51862587-51864274
Coord C2 exon
chr4:51864275-51864448
Length
1688 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTTTTCCATTTTCCATCCAGTTC
3' ss Score
8.9
Exon sequences
Seq C1 exon
TTCATTCCTATGCCTGTGCTCTATGGTGTCTTCCTGTACATGGGTGTTGCATCCCTCAATGGCGTGCAG
Seq A exon
GTAAGCTTCCGCAGCGCCCAGGGCTGCTCTGGCAGCTGTGAGCAGACTCCCCGCAGGACCTTGCCCAGAAGATGGTAATCATTAATTATTACAAGGCTTCTCTTAGGACTTTCTGGCCTTCCTCTTCTCCTCCGCCGCCTCATTTATGTTTCCAAAGAAACCCAGGCAGGGCAGCAACTGTTTACAAATATTGCCACACACTGGCTGTTCTTGAGAATGACACTAAAGGAAAGAAATTTGCTCAGCAGGAAAGCAGCCAAGTCTTGGCCCCGTAAGCAATGAGGGGGGTCTATGTGAAGACCCGGGATCCTTCTTCACCCCCACCATACTGATACAGAGAAGAGCATGTGCTTACAAAGGCTCTAGGCTCACTTCTGGGATAGATTGGGTCCTCTGCTGGGACATGTGTTACAGACTGAAGAAAAACAAGAGAACATGATTTATGGTGGTGGCATTATTCCGCAGTGTTAACAAGTGGGAACATTGCTGTTTGCTATGGAAGGGAAGCCAAGCCCCCTTTCTTTGTCACTGAGGAAATATTACGTAAGGAGCCTTTCTCACAGTGCACTATCTTTAATTGGTGCTAGGAAGCTGGAAGTGTTTTTGTTGCTTTCTGGCACCCTATTAATTGTAGCCTTTCTTTTTAGTGCTTAGTGGTGCTCTAATGGGGAAAGACTCTGTGTTCTGTGAGCACCATGAGAGTTTATTTGGGTATTCTTTAAAAAGGCCTGGGCTTTCATTCACTGGTTTGCGATAAATCTGGTCTCAGAAGTGGGCAGTAAGCCCAAGTTCTGGCAAGAGACAAGGGGGGATTGTAATATTCACCCTTGGGCTGGTTGAATCCCTGGAGGGGATTTCCCCTGCTTTCTGGCACAGGTGGTCACAGAACTGTGCGCTTACTTATTTTCCCCGATCAAAGATGTTTTTCAGTCAGTGAGAACTCTCCAGTTTGGTTTAACTCCAAGTCCACCCAGTCCAGCATGGGCAAGGGACACTGCCTGAAAAGCTGTCCATCTTCCTCGCTCTTCAGTTAGGTGCATTCTATACTCTGATAACACGATGTCTGCCCTCACCTCTGCTGACCTCTGCTTGCAGTTAATTTGATAAAGGCACTACTTTTAAATGCCGAATGTCTTTATAGCGTTCCCTGGCAGGTACAGGGAAGTTAACAGAACTAACCCAAGCATTGATGCTGACCACAGTCAGGACATTCATCTTTTTTCTCTGTCTCGTGGGTGATAAACTGCTTTCTTCAACAGAAAATCTCCTGTCTCCAGCTACAGCAGATCAGCCTAATTGTTTTGAAGCCAGCAGAGCTGTTTCCACAGACACCTAAGTTTTTTGGTTTAAATATTAATCATCAGATTACATGGAGCCCTGCTCCCTAAAATAAAGGCACCTCAAGGCCTTGCTTTGAGAAATGCTCGATTCCTGTGTCTGTGTAGGTGCCAAATGTAGGTGTGGAAGCTTAACTTCCGATAACTCAGTTAAAATATTTAGCCCATTGCATTAAGCAATAGTTACTCAAGATAGAGGAACCATGCTGCGTTCCCTGCTGTGCTTCCTTTATGGAAGGAAAACAAGTTGATTCAAGGTCTCACTTTATAGTTTAATTATGCAATTGTCTCACTTTGTTGTTTACCCTGTGTTTCATTTATATGTATGTTGCTTTTCCATTTTCCATCCAG
Seq C2 exon
TTCATGGATCGTCTGAAGCTGCTCTTGATGCCTCTAAAGCACCAGCCTGATTTTATCTATCTGCGTCATGTCCCGCTGCGCAGGGTCCATCTGTTCACGTTTCTGCAGGTGGTTTGCTTAGCCCTACTCTGGATTCTCAAGTCAACTGTGGCCGCTATCATATTCCCTGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011604:ENSGALT00000018945:22
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(4.2=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(6.5=58.6),PF103594=Fmp27_WPPW=PU(1.1=1.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATTCCTATGCCTGTGCTCT
R:
ACAGGGAATATGATAGCGGCC
Band lengths:
238-1926
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]