GgaINT0077061 @ galGal3
Intron Retention
Gene
ENSGALG00000012068 | C4orf21
Description
NA
Coordinates
chr4:58687632-58689041:+
Coord C1 exon
chr4:58687632-58687893
Coord A exon
chr4:58687894-58688815
Coord C2 exon
chr4:58688816-58689041
Length
922 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
CTATTGAATGTTGCTTTCAGGAC
3' ss Score
7.89
Exon sequences
Seq C1 exon
TTACAGAACTTGCTTAGGAGCATACATTCTGAGGCTTTTCCAGTGAAGGCTGTCCAGGTGTCCACTGTAGATGCATTCCAGGGAGCCGAGAAGGAGATCGTTGTTCTGTCGTGTGTAAGAACAAGGCAAACTGGATTCACAGACTCAGAAAAGAGAATGAATGTTGCACTAACAAGGGCAAAGAGGCATCTGCTGATTGTTGGAAATCTGGCCTGCTTAAGTAAGAACAGACTCTATGAAAGAGTAATTAATCACTGCAAAG
Seq A exon
GTATTACATTCTCTTCCTTTATTTTCAAAACCATGTAGCTCATCTTTTAAAATTATGCAATATGCTGTATATAGCAATATATGTACTATGCAGTGTACATCCTTCATAATGCACAGTATGCATACTATGCAAAATGCAGTATATTTCCTACATACATGGTCTATTGCAAGTAGACCGCAAGCACAAAAGTTGCTTGTTGGCAGTTTTATCTGCAAACTGCTTTTATACGTTAAGTATCCTTGTTATCCGGTAATGGGACTTCTGTTTTCTTCTCTTGGTGGCATGAGATAGATGGACAGAGTACTCTGGTAAGGAAATCTGGAGATGATTACTGCATTTCTAGTGCTTTACCAATTTGGTTTTTACATAGTAGACCCAGGCAGGAACACACAGTAAAGCAATTTTTCCTTGCAGCTCTATTTCTGAGTAGGTCGGATTAAACAAGGGAAAGACAAATGCACCGTGTCTTTCTGCAACTGGGAAATCATTTCACATCTCAAAGCATGAGTACATTTCATCCTAACTTTGGCCTTATCGATCCTCATTGAATTAGAGAAGGGAGAGAGAGTCCCGATTTCTAAAATATCTTCAATAAACTGAATCCAACTCCCCAGCACCCACTGGGGTGTCTTTGCAGACACACGCCTGCCCTTTGCACAGAGAGGCCCTCACCTTAGCAGGTACTACAGAAGGAGTTTTTAGTGTCTAAAACAGATAAGAATTCAGTACAAGAAGAAGTGCCAAAATGCTAATTTTACTCTCTCTACTTGGTTGGCATCAAGGCTGGCTGAAGAACAACAGTGTTCCCAGTAGAAATATTATTGCTGTTTGATGCCAATAGGTGTTCCCATTGCCACACACTTAATTACGTGATGGATGCTGTGAAGTGAGATATAATTATCCTATTGAATGTTGCTTTCAG
Seq C2 exon
GACGAGAAAATGGATTGCAACATGGAAGCCAATGTGAGCAGCAGTTAAACAACGTTCTTAAGTACTACTTGGAGGAAAAGAAGGAAGAGGAACAGAGTAAGAAAAAGGAAAAATAAAATGTGTATCTGAAATCCCTTTAATTCTATTATTAATATTAGTATGAATTATTTAATAACTAAGCTCATGAAGTACCTAATTGCATTATTAGCGTTTCGTTGTTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012068:ENSGALT00000019715:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.211
Domain overlap (PFAM):
C1:
PF130871=AAA_12=PD(37.4=79.5),PF138371=Myb_DNA-bind_4=PU(53.7=50.0)
A:
NA
C2:
PF138371=Myb_DNA-bind_4=PD(45.1=94.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGCATACATTCTGAGGCT
R:
CTGTTCCTCTTCCTTCTTTTCCTCC
Band lengths:
342-1264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]