GgaINT0077114 @ galGal3
Intron Retention
Gene
ENSGALG00000011604 | SLC4A4
Description
NA
Coordinates
chr4:51871944-51875485:+
Coord C1 exon
chr4:51871944-51872040
Coord A exon
chr4:51872041-51875405
Coord C2 exon
chr4:51875406-51875485
Length
3365 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTTTCTCTCCTCCCTGACAGAAG
3' ss Score
9.94
Exon sequences
Seq C1 exon
TCTGACTGCCCCTACTCAGAAAAAGTCCCAAGTATTAAAATACCAATGGACATCATGGAGCAGGAACCTTTCCTAAGTGATAGCAAACCTGCCGACA
Seq A exon
GTGAGTAGAACTAACCTCTTGCATGCCTGCGTGACTCTGACGTGCAGTACAAAATATATATCCATTAATTTTTTAAAAACTTCTCTATTATTTCCCAAGTGTGGGGCTTTTGTTTGTTTTTAACTTCCAGGTCTCTGATTTATGACAGTATTTGGCTTTGTTTTTATGTATTCTTTTTTCTTTCCAAAATTTGTGTTTTTTCTTTTGGTGCCTCCAGCTTAACTGCTTTTGTCCAGCTGTGTTTCGTGGTAACTTCCTTCCTCCTCCTCCCTGTACCTTCCCCATCCACTCAGTCCATTTCTGACCTTTGCCATTTTATGTTAAATTTGCTGATGGTTTGCATTTATTTTTCCTGAGTCTATTAGTCTGGATTTGCAGCATGTCTAAACTGCATTTCTGTCTTGTTACTGTTTATTTCCTTAGGTTCCAAGCAGTTGCAAAACTCAGCACCTTAAAAGAATAATTAAGCATGTCATTGATCCACATTATGCATTAAACTGACAAGGCAGTGATCATTTGACCATTAACACATTTCCCTTCTTAGGTGACTTGCTTCTGTGCTATTGTATCTTTTTAATTTCTTAGGTTAATATCATGGCATCAAGGAATTGTAGGGGTTGGAAGGGACCTCTAGAGATCATCTAGTCTAACCTCCTTACAATAGCATGTTCCCTTACAGTAGGTTGCACAAGAAAGCTTCCAGGAAGGTTTTCAATATTTCCAGAGAAGGAAGCACAGCCTCTCTGGGCAGCCTGTTCCAGTGCTATGTCATACTCAAAGTAAAGAATTTCTTTCTCATGTTTCAATGGAAATAAATTCCTGTATTCTAGTTTTTGCCTGTTGCCCCTAGTCCTGTCATTGGACAGCACCAAAAAGAGCTTGGCCCCATTCTCTTGACACCTGCCCTTTAGAGATTTATAAGCGTTGATAAGATCTCCCTCTCAGTCTCCTCCAGACTGAAAAGTCCCAGGTGTCTCAGCCTTTTCTCACAGGGGAGGTGCTCCAGGCCCCCAGTCATCTTTGTGGCCCTCCGCTGGACTCTCTCTAGGAGTTCCCTACCTTTCTTGAACTGGGGAGCCCAGAACTGGACACCGTACTACAGGTGTGGCCTCACCAGGGCAGAGTAGAGGGGGAGGATCATCTCTGTTGACCAGCTGGCCGTGATATTTTTAATGCACCCCAGGATCCCATTGGCCTTCTTGGCCACAAGGGCACACTCCTGGTTCACGGTCAACCTGTAATCCACCAGGATACATAGGGCCTCCTCTGCAGAGCTCCTTTTCATCAGTTCAGCCCCTAACCTGTACTGGTGCATATGGTTATTCCTCTCCATGCATAGGACTGTACGCTTGCCCTTGTTGAACCCTCATCAGGTTCATTTCTACCCAACTCCCCAGCCCACCCCGGTCTCTCTGAGTGGTATCACAGCCTTCTGGTGTGTCAGCCATTCCTCCCAGCATTGCATCATCAGCAAACTTGCTGGAGGGTGGACTCTGTCCCTTCATCTAGGTCACTGATGGAGATGTTCAACAATACCAGATGCAGTACCGGTGCCTGGGGAACACTGCTAGCTACAGGACTCCAACTAGACTATGCCTTCATTTTCAGTCACTTTCACTTCTCATATTATAGCCTTTTAAGAGAGGAATCAGAAATAACAACTGACATGAGCTTTTTTGCCTTTGCAGCAACTTCTGACAATATTATGAGCAATGGGTTCAGTCTTGAGATAAATATGCTGTTTTGTCATGAGATGGGAGCAAAGAAGCACGAATGATAACAGTAAATCAGTACTGCTGCATTACTGGTGATAAGATTTCTAGGAGTAAGACTTGGAAACACTGATCTTTAGATTCCTTACGAAGGATTTGTGTTTAGGAGCCGGTCCCTAACTGTGTTGGCTTTTGGTGGTGACATTTGGCAACCCTAAGCATTGCATTGTGTTTTCAGATAAATGAACACTTAAGAGATTAACATTCTAAAACAAAGCCAAAGAGAAAGACAATTACTTTACTGTTTGTATACTCTCAGTGTATCAACCTTGAACCAAACAGATCCTCTTCATTTTTCTATGGAAATGCCCTGATATGCTTAAACCAAGTTCATCTTAAATGTTGTTGCACAGGATCTTATGATTGGGGATAGTGTTCTTAGCATCATCAGGGCTGAAAGAATTAGGGAAATGGCAATACTTCTGCCACAGACCTGTTTGTTGGAATGCCCTTTCAGACAACATGGGATAAGACGAGGGCCAAGCAGCAGTTTGTTTGTGTATGTGTACAGTATTATGATTCTGAAATTGATTTGTCAGCTTTTATTTAGAAACAATGCAAAGAACAAAAATCAGGCTCTTGTACTAGAAAAAGTAGCTGGAATCCATCAACACCGTGGTCTCACCCTACTCATCCTAGAGTATAACAGTGCTCCAGGACTCAAAGTGCATTACTAATTTTGCATGTTCAGAGTGCTTGACAATTTACCCTTCAACCACTAAGGCAGAGAAGTGGAATCCAGCTGTTTCTCAGTCCAAACACAAAATTCATTTTTTACTCCTTAGCTTCCTTTAGCAATAGCAAGAATAGGATTATTATTAAAAAAGAGTACACATTTCACCACGCTGGTCAGGAAATGAATGTGATTACAGGCAACAAGCCACCTGTTTTTGCGCAAGGAGCTTGGATGCTACAGTGAGGAACAAAGGGTAACTAAAGTTGTAGATGAAAGGTAAGTATCAAGATGTAAAGGTGCTGAAAGGAGGTCAAGAAACTGAGTAATTTTGAGGTGGAATTTGGGAATTTCCCAACTAGGCATTGTGTGCCCAAGCCCTGACCGAGGGATTCCCAACCCCTTTTTGTCAGGCAACTCTGAGCACCGAACAGACGCAGAAACACTCTCGCCTCATGCTGGGCTGAGACCAGCTTTGCAGCGTGGCTTCCCTCAAGGAAGCATACTCGAGCTGGAGACCCTTTGCCAGGCTGCAGTGCAGGCCTGGTGAGTACAAAGTGAGTTTTCCCATGGGCTGTTTACTTGGAGCGGCTTAGCGGCCTCTTGTGTGGCAGCGAGGTGACTGCTCGTGGCTGGACAACTGCCTATGCAGTTGTGTGTCTGCATGTGCAAAGGGCATGCAGCTGAATGCCACTCACAGGGCAGTCCCTGCAAATGAATCATGGTTATTTTGGCAGTTCAGGTTCTGTATTTTGGAGGAGAGACTTAACTTTATTATTTCCATTTTACAACCTGTGAAATTCATATAGCAGGAAATCAGCAGTTAAAAGCACTGCTAAATATAGGAGAGTTTGTTGGGCTTAAGAAACCATCAGTGCTGCATGCAATGACAAAAAGATCTTTTCTCTCCTCCCTGACAG
Seq C2 exon
AAGAAAAATCACCAACATTCCTTGAACGCCATACGTCGTGCTGATAAAATTCCTTTTCTTCAGTCACACACTATGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011604:ENSGALT00000018945:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.273 A=NA C2=0.571
Domain overlap (PFAM):
C1:
PF103594=Fmp27_WPPW=FE(36.0=100)
A:
NA
C2:
PF103594=Fmp27_WPPW=PD(0.1=0.0)
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:
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]