GgaINT0077050 @ galGal3
Intron Retention
Gene
ENSGALG00000012068 | C4orf21
Description
NA
Coordinates
chr4:58677304-58678627:+
Coord C1 exon
chr4:58677304-58677440
Coord A exon
chr4:58677441-58678480
Coord C2 exon
chr4:58678481-58678627
Length
1040 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GAACTCTGTTGTTTTCACAGATG
3' ss Score
9.21
Exon sequences
Seq C1 exon
GAAAGGCTATGAAATTGGAACACGGTGTAGCAAACTCAAGAAACTTATGAATGTGCATGCTGAATCTGATGGGGATTCCAAAAGTAAATTGTACCTCAAGCTAAGCAGAAAGGAGCATTATTCCCTCTTTAGCAAAG
Seq A exon
GTAAGAAAGTTTTAAGCATCAGAATAATAGTCTGTGTTTACATTTATGTTGTGCCTTTTTGAGTTCCTTTTGATATTGCAATTTGAAACTTTATCTCCTTGTGGAATGCCTGATAACTTTGATTCCTTTCTAATTCTAGAGAGTATCTCTATCTTTTCCTGTGAATGTTGATATAATTTAGAAAAAATATAAATTCCATGTCTTTAGATTTGGACTGTATGAAATCTGTAAATAGCTGAATTTTCAGGAAAGCCCAATATTCAATAGAGTATAGTGAAGGAAAACTTAAGGTAAGGATTGGTGTTTCAATAGGTATTGCCTACTTTGTCTAACTTACATGTCACAGAGTCAGAAGGCATTTGGTAACTTGATCCAGATTGCCTCAGTACTTTTTGAGTAGATACATGTATTTTCCTGGTTTGTTCATTTTGCTATGGAACATTACAGAAAGAAATTAGGCAGAAACTAACATGTTCGTGAATGTTTCAACCACAAACTCTAAAATATTCTAGTAGATCAGAGTTTTGCTATTTTAAATTGTGAAACTCTGCAAAAGGACAGTTGTGAATGGAAGATTTGCTAGTCGTTTTTGTAACAGGCAAATACATATGGAGTAGTGTAGCCTCAGCAGATGTGCCTAGCAAAGCTGAACATTAAGAGGTTACAATATGTGATGCCTTTATAAGGGAGGAAAACCAAGTAGTTAACCAGATTTGTGGTATATTGAAGTGATTTGCTCTGAATACTGAGAGAATTAATAATGCTTAGGCTTTGTCAGAAGTTAACTGGCACTAAGTGCATTAAAGAGAGAACTTTACCACTACAATAGATTTTAGATAGGGATCACTTGACAAATTGATAATTTAAGTTACTCCTTTTTTGGGAAGTGAACTAACGTGTTTAGGACTTTCTAATACCCCTCACTGTCATGTTAGCAGTCATTTAATTTACCTAGTCAATGTTTCACTTTTATCTGGTTTCCTTTTGTTTAAAAGATATTAGATGCTTAGAAGTTAATGAGAACTCTGTTGTTTTCACAG
Seq C2 exon
ATGATATTTGGGTTGTTTCAAAGACTCTGAATTTTGATTCCCTTGATACCTTCATTGCAAGTAGTGCTTTCTTTGGACCAACCCATAACAACGAAGTAGAACTACTACCACTGAAAGGCTATTACCCCTCAAACTGGCACTCACATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012068:ENSGALT00000019715:5
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=0.000
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
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTATGAAATTGGAACACGGT
R:
ATGTGAGTGCCAGTTTGAGGG
Band lengths:
280-1320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]