Sequence
atgc intronic sequence ATGC exonic sequence...gaattagaaaatatatgtaaactgatgataattagtagtttaccgagtccattaccttgcagcaacctgcaagtatctgacctgtgtttttgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAGTTTAGTGTGATATGGGATTTTCAGCGGGTGAAGAACAGTGCACATGAAT
Basic information
species | Glycine max |
transcript | GLYMA02G14960.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G14960.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G19240.1 (Arabidopsis thaliana), 3'ss of exon 1
gaattagaaaatatatgtaaactgatg-ataattagtagtttaccgag-tccattaccttgcagcaacctgcaagtatctgacctg--tgtttttgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAGTTTAGTGTGATATGGGATTTTCAGCGGGTGAAGAACAGTGCACATGAAT
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----------gtaagtttcacttcacacattattactgtcttcctaagattcttgattgtttataaaaccaaatctcattgtctttgttgtgtattgtttgcagGTAACTGAGAGTGGAAAGCAAGAGAGACACATAGTAGCAACAGTGGGGAAATTCAGTGTGATATGGGACTTGGAGCGGGTGAAGAACAGTGCACACGAAT
upper sequence: GLYMA02G14960.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv03s0063g00480.t01 (Vitis vinifera), 3'ss of exon 1
----gaattagaaaatatatgtaaactgatgataattagtagtttaccgagtccattacc-ttgcagcaacctgcaagtatctgacctgtgtttttgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAGTTTAGTGTGATATGGGATTTTCAGCGGGTGAAGAACAGTGCACATGAAT
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ttcagttccagtcgtcaaagataaactattgg--actactcgtcaaaaaaaaaaaaagcaattggactga--tggatgtgt-tgcattttatattgtatttccagGTGACTGAGAATGGGAAACAAGAGCGGCATCTAGTTGCAACAGTGGGCAAGTTCAGCGTGATATGGAACTTCCAGCAGGTGAAAAACAGTAGTCATGAGTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|213600996|gb|DB983671.1|DB983671EST: TGGTGCGAACAATAAGTTTCACAGCT-TCAATTTTACTTGG GTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAG
genomic: TGGTGCGAACAATAAGTTTCACAG-TGGCCATTTTTCGTGGgtaagtttga ... tgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAG
EST:
gi|209724520|gb|BW658379.1|BW658379EST: CGCATTTGGCTGGTGCGAACAATAAGTTTCACAGTGGCCATTTTTCGTGG GTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAG
genomic: CGCATTTGGCTGGTGCGAACAATAAGTTTCACAGTGGCCATTTTTCGTGGgtaagtttga ... tgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtccattaccttgcagcaacctgcaagtatctgacctgtgtttttgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAGTTTAGTGTGATATGGGATTTTCAGCGGGTGAAGAACAGTGCACATGAAT
atctgac putative branch site (score: 3)
tgtttttgtctttc putative PPT
tgttttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattagaaaatatatgtaaactgatgataattagtagtttaccgagtccattaccttgcagcaacctgcaagtatctgacctgtgtttttgtctttcagGTCACTGAGAATGGTAAACAAGAACGCCACCTCGTTGCGACTGTGGGCAAGTTTAGTGTGATATGGGATTTTCAGCGGGTGAAGAACAGTGCACATGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - -agaaaata
- - - - - - - - - - actgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacct