GgaINT0091329 @ galGal3
Intron Retention
Gene
ENSGALG00000006112 | F1NDB7_CHICK
Description
NA
Coordinates
chr2:5384093-5386004:+
Coord C1 exon
chr2:5384093-5384359
Coord A exon
chr2:5384360-5385893
Coord C2 exon
chr2:5385894-5386004
Length
1534 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCTCTGTTTTCTTTTCCAGACA
3' ss Score
12.32
Exon sequences
Seq C1 exon
ATGGCTGACTTCTTGTTACCACCGGGTACTAACAGCTTCCACCGGTTCACGCCCGAATCCTTGGCTGCTATTGAGAAGCGAATTGCAGAGAAGCTTGCAAGGAATGCGAAGCAGGAGTACAGAGAGCAGCTGGGCGAAGAGGAAAAGCCTCAGCCTCAGTTTGATTTGCAAGCGTGCAAGAAGCTGCCTGATATCTATGGGACTGTTCCTCCAGAGCTTATTGGAGAGCCACTGGAGGACATTGACCCCTTCTACAATGATCGCAAG
Seq A exon
GTGAGCATCAGCAAGGCGTTCTGCTTCTTAGCGTTTGCTGAGCCATATTGTCTTTCTTTGTGTTGAGGGCTCAGGTTTTTATCTTTCTACAGTCAGTAAAAATATTTTTTTTTCCAGATTTTTGGCATGAGTGAGGCTCCCAAAAAACATGTAAGCAGTGCAAAGAAGGATAAAAAATATAATTAAAACCTGGGTGTTTTCAAGTGATGCTGATTATGAATATACATAATATGAAAAGAGCAGAGCAATAGCTGAAGGAAGCCAGAGGTTTTTATCTACTGTATCTTGCATCTTCATCAGATTTGACCCTTCACAGATGTGATGACCTTTTGAGTCCCTTAATTGAACTTGGATCTTGAGTCTTGGGTCTTAAGTAATGGGACTAAGGGCTCGAGCATCATGCTCATCACAAGAGGGAAGCACCTCCATGACCATTCTGAAGGGCAGTTGTTTTTCTGCTGAGGAATGATTTAACTCCATTTAAGATGGAGAGCGGGGCTGGTTGTTTACTACAGTTCATTCTCCTTTCCAAACATTTTGCAACATGGAGGATAAAGCAAGGCTTGGAACCTCAGAGTATTTTTAGGGAGCTTCATTTTCTTTCAGGTACTGATGTTCCTGGTTTTGGGCTAAGCTACTTCCTCTAAACAAAGGATTAATATGACTATGGTGATACTTTTATTAAAGTGATGTACAAACACCTACAGAATTAAAGTTAAGTGGACAAAGAGAAGGACCTGTAAAGGCAGAATTAAGTTGTAGATATTTATGGCTCTGCTGTTCCTGCTGTCTCCATGCACAAGCAGCGGGGTACAGATTTGGAATTTTAGGATCTCAAAGGTCTTAGTTTCCAGTGGATGACTTGCTTAGGAGTTTATCTACTGAGTGGCCTGCTCCTTTTGCTGAGTGAATTTTAGTCCTTCCAGGCATGAGTGGGCATTTCCAGAGCTGTGTAATTGGGTCAGCATCCAGTTCATCTTTGCTTTGGATTTAAGATAACTCATTATGGGTTTCCTCCCTCCATATTATATGAACACAGTGACAGTGCTTTAGTGCCTGGGTTAGATCCTCTTGTGGAGATGTGCCTCATGAAATCTTTGAGTCATTTAGGTTGGAAAAGACCAGTAAGTTCATCTAGTCCGACCGCCAGTCCATCACCACCATAGCTTCTTGAAAGATGAGTTGAGAAATGTTGACTGAGAGCAATAACATGTGCAAGGTAGGGAAGATGGAGTAACAACACAGCAGTAGAGATGTGGCATAAAAGTCTCTCTAAAGCATTTTAGTCGCCATGCCATCATTCACTGTTGTAAATCTAGTCCTGTTATGGAGGTAGGACTAGGAAGAGGGGGTATGAAAGGAACTGTAGGCAGTGAAGAAGATGACTTCATGGTGTGAAAAACAATTTGGGGATTTGGGATGGAGTGAGGAAGAGGTTTGGGATATTGGCAGGAGTTTCCTGGGAAAATGGGATGGGAAAAGCCTAACGTAAGTGCAAATATTGAATGTTTTTATTCTCTGTTTTCTTTTCCAG
Seq C2 exon
ACATTTGTAGTACTGAACAAAGGGAAGACAATATTTCGATTTAGTGCCACTCCTGCCTTGTATATACTTAGTCCTTTCCATCCAGTCAGAAGAGCAGCAATTAAAATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006112:ENSGALT00000009918:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.124 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCGGGTACTAACAGCTTCCA
R:
GCTGCTCTTCTGACTGGATGG
Band lengths:
345-1879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]