Sequence
atgc intronic sequence ATGC exonic sequence...ttaaaaagtttatacaaacaggacctaactgaatttttatttatttattttggtgaatttattaagtggttattcttatctgatgtgtgtgtgggtgtagGAGGATACTTGTTCGGTGATTTCGACTGTGCTCTTTGTATCTGGAGTGACTACACTGTTGCATACAAGTTTTGGGTCGAGGTTGCCCTTGATACAAGGGC
Basic information
species | Glycine max |
transcript | GLYMA17G05280.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05280.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 2
ttaaaaagtttatacaaacaggacctaactgaatttttatttatttattttggtgaatttattaagtggttattcttatctgatgtgtgtgtgggtgtagGAGGATACTTGTTCGGTGATTTCGACTGTGCTCTTTGTATCTGGAGTGACTACACTGTTGCATACAAGTTTTGGGTCGAGGTTGCCCTTGATACAAGGGC
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-------------gtaagtgtgattcttttggactctctactttggacaatgatgattg---caaatg--taatttcaact--ttttttttggattatagGAGGAGGTTGCAAATGTTGTATCGACTGTACTTTTTGTCTCTGGAATCACTACACTGTTGCATACTTCGTTTGGGTCGAGGCTTCCTTTGATTCAAGGTC
upper sequence: GLYMA17G05280.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 2
ttaaaaagtttatacaaacaggacctaactgaatttttatt-tatttattttggt-gaatttattaagt----ggttattcttatctgatgtgtgt--gtgggtgtagGAGGATACTTGTTCGGTGATTTCGACTGTGCTCTTTGTATCTGGAGTGACTACACTGTTGCATACAAGTTTTGGGTCGAGGTTGCCCTTGATACAAGGGC
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gtaagtatttctaatatatttcttctgactgattgtacttcatatttgtttagattgaatgctgtaagttgtagatttgcttgatctaattgaagatagtgggtgtagGAGGATACTGCGATGGTGGTCTCCACTGTGCTCTTTGTGTCAGGAGTGACAACTCTCTTGCATACATCATTTGGCACGAGGTTGCCCTTGATACAGGGTCMapped 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|209699682|gb|BW655748.1|BW655748EST: CGTTGATTCTCATTCCGCTCGTTATAGTTCCGGCAATGGGAGGCTCTCAT GAGGATACTTGTTCG
genomic: CGTTGATTCTCATTCCGCTCGTTATAGTTCCGGCAATGGGAGGCTCTCATgtgagtgact ... gtgggtgtagGAGGATACTTGTTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttggtgaatttattaagtggttattcttatctgatgtgtgtgtgggtgtagGAGGATACTTGTTCGGTGATTTCGACTGTGCTCTTTGTATCTGGAGTGACTACACTGTTGCATACAAGTTTTGGGTCGAGGTTGCCCTTGATACAAGGGC
atctgat putative branch site (score: 4)
tgaatttattaagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaaaagtttatacaaacaggacctaactgaatttttatttatttattttggtgaatttattaagtggttattcttatctgatgtgtgtgtgggtgtagGAGGATACTTGTTCGGTGATTTCGACTGTGCTCTTTGTATCTGGAGTGACTACACTGTTGCATACAAGTTTTGGGTCGAGGTTGCCCTTGATACAAGGGC
- - - - - - -acaaaca
- - - - - - - - - - - - ctaactg
- - - - - - - - - - - - - - - - - - - - - - - - tttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt