GgaINT0126080 @ galGal4
Intron Retention
Gene
ENSGALG00000008898 | GRIN1
Description
glutamate [Source:RefSeq peptide;Acc:NP_996862]
Coordinates
chr17:1018738-1020410:-
Coord C1 exon
chr17:1020236-1020410
Coord A exon
chr17:1018883-1020235
Coord C2 exon
chr17:1018738-1018882
Length
1353 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
CACTGTGTTTCTCTTTGTAGGGT
3' ss Score
11.65
Exon sequences
Seq C1 exon
GAGTCATCGGCTTGCAGCTCATCAATGGGAAAAATGAGTCAGCCCACATAAGTGATGCAGTGGCGGTGGTGGCCCAGGCTGTGCACGACTTGTTTGAGAAGGAGAACATCACCGACCCACCAAGGGGCTGTGTGGGCAACACCAACATCTGGAAGACGGGGCCCCTTTTCAAGAG
Seq A exon
GTAACTGGGGAAGAGTGAATGCCATTTTCCCAAGGGAAAGGAGCTTGAAAAGATGGGAGCACTGTCTCATACACAGGCCCTTGGTTTGCCCAACGGCATCGCCATATTGGTGCCTGGCACCAGTTCAGTACATGCCATCCCATGAGCATCTCCTGGGCAATGCTTGGACAATTGGGATCAGCTGGGGGTGATGCTCAGGCAAAGACCTGGGGCCATGGAAGGATGCTTTCCTCATTTCTGGATCTTAATGAAGTGTGTGGGAAAGAGGAGAAACGGGTTTTCTGCCAAATCAGGATAGAGGGGTTGTCTGTTGGATCAGATCTCAGTGCTGCAAGCATTGGGCAATTCAACAGTGTTGGCAGAGCGTGGAGGCACAAGACTACAGGTCAGGCTGCTCTCTGCTGTAGCAAATCCTGGAGCCATGTTTTTGATCAGGTCATGTAGCACAGGACTGGAGCACACATGTTGGATCTCACTGCCATGGGCAATGAGATGGGCTGTATGCGGTGCCTAGAACCTGATCTTTATGCTGCATGGTATTTTCTGCTGCACCTCTGCAGATGGTGGAGAGACAAGGGCCTCTTCTGCAGGCTGAATCTGGACAAAACAGCAATTGCCTCTGCACATGGTTCCCTGTACAGGAGGACTGCTCTCTGAAGCATGCAGCCTGACACCTTGTGTCAGCTGTGGGGTCTCATGCTGGGGGTTGCTCTCTGCAGACATGGTGTTATGTAGGATGCTCTTTCTGTATCTCTTGGTTCTGTTAAGCCTTGGACCTGCAGAATCTGAAACTTATTTTGGAAAGATTTCCAGCATCTCCTGCAATGATACAAATGTTGGCGTTAGCCACTAGGTGTTGCTCTCTATGGCACACTGCAAGTGACCCCATCCATTCTGTGTTTTCTCTACCATCTTTCCAGGTTTTGGAGGCTGGTCCTCCCCTTTGTAGCATATGTGCATGCATGGGGCATTAGCCAGGTTGTGATGGGCTGTGGCAGACAGAAGCAGTAGGAACTGTGGCATAGATGCAGCTCCCAGGGTGCCCCAAAGATCTCTTTGGATGCTGCAGGATAGAAGAATGGGCCAAATCTTTCCGTAGGAAAATGTAACTGATCTGGTAGAAAAGAGGGGACAATGACAACAGATGTAGTTGTGTGGCATCGGTGACTCAGACTAACCTCATCCACCAGGAACCAGTGACCACCAAGCTAGGTCATATGTATCAAAGATAATATAAGGTAAATAGCATACGAAAATGTCAGGCAATTGAGAGAAAGATTTCTGATCCCTTCTTAGATCTCCCAATAGCCACAGCAGGTTTTTTAGGTTGGCCCACTGTGTTTCTCTTTGTAG
Seq C2 exon
GGTGTTAATGTCCTCCAAGTACTCGGAGGGTGTCACCGGACGGGTAGAATTCAATGAGGACGGGGACAGGAAGTTTGCCAATTACAGCATCATGAACCTGCAGAACCGCAAACTGGTCCAGGTTGGGATTTACAACGGTAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040369:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(18.2=100)
A:
NA
C2:
PF0109423=ANF_receptor=PD(10.7=69.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCATCGGCTTGCAGCTC
R:
TGCTACCGTTGTAAATCCCAACC
Band lengths:
318-1671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]