Sequence
atgc intronic sequence ATGC exonic sequencegttgtgtgctgtgctctcactgatatatgtttctcttgtccatgtaaattatcatatatagaagcacccaatttttaactaaattggctaattaacttcctttgttttgttttcatctagTTTCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAAACTGAGAAAATATTGAACAAGATCATCTCCAAGAATTCTCATAACATAC
Basic information
species | Glycine max |
transcript | GLYMA17G12440.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12440.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0048g02730.t01 (Vitis vinifera), 3'ss of exon 6
gttgtgtgctgtgctctcactgatatatgtttctcttgtccatgtaaattatcatatatagaagcacccaatttttaactaaattggctaattaacttcctttgttttgttttcatctagTTTCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAAACTGAGAAAATATTGAACAAGATCATCTCCAAGAATTCTCATAACATAC
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------------------gtctgtacacataaccctattacagtgaattcttcagttctt----ttcctaactataaaatctgatgg--agctgacataatccatt--gtttttatttagTTCCTGCCGGTAGTGGAAGGGACAGGAATTGGATCACTAGAGAAGCAGCAAACTGAAAAAATTTTGAACAAGCTAATCTCCAAGAATTCCCATGAGATAC
upper sequence: GLYMA17G12440.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0046g01120.t01 (Vitis vinifera), 3'ss of exon 6
gttgtgtgctgtgctctcactgatatatgtttctcttgtccatgtaaattatcatatatagaagcacccaatttttaactaaattggctaattaacttcctttgttttgttttcatctagTTTCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAAACTGAGAAAATATTGAACAAGATCATCTCCAAGAATTCTCATAACATAC
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---------------gtctgtg-cacataactctgtta-ccgtg-aattcttcagttctttttcttcctaaatcttaaggaa--tcactgacttcacctttcccccttgtttttgtttagTTCCTGCCAGTAGTGGAAGGAACAGGAATTGGATCACAAGAGAAGCAGCAAACTGAAAAAGTTTTGAATAGGCTAATCTCCAAGAATTCCCATGAGATACMapped 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|193329669|gb|FK293673.1|FK293673EST: AAAAGCCTCAGAAACATGAAGGAAAATATCGGAAG TATCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAA
genomic: AAAAGCCTCAGAAACATGAAGGAAAATATCGGAAGgttgtgtgct ... tttcatctagTTTCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acccaatttttaactaaattggctaattaacttcctttgttttgttttcatctagTTTCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAAACTGAGAAAATATTGAACAAGATCATCTCCAAGAATTCTCATAACATAC
aattaac putative branch site (score: 2)
cttcctttgttttgtt CT-rich tract
atttttaactaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtgtgctgtgctctcactgatatatgtttctcttgtccatgtaaattatcatatatagaagcacccaatttttaactaaattggctaattaacttcctttgttttgttttcatctagTTTCTGCCAGTAGTGGAAGGAACCGGGATAGGATCACTGGAGAGGGAGCAAACTGAGAAAATATTGAACAAGATCATCTCCAAGAATTCTCATAACATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA