Sequence
atgc intronic sequence ATGC exonic sequenceGCGGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattttttgattatttgttcaaaatctcgactcaataaaaatgaagcaacacgggattaaaggtgactaaaatacaaatggcataaaaaaaagtc...
Basic information
species | Glycine max |
transcript | GLYMA09G03660.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G03660.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g20100.1 (Oryza sativa), 5'ss of exon 6
GCGGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattttttgattatttgttcaaaatctcgactcaataaaaatgaagcaacacgggattaaaggtgactaaaatacaaatggcataaaaaaaagtc-----------------------
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GCTGATGAGATGGCTCAGATATTCAGGCAGAGGATAGCTCAAGCAGAGGCAATGGCTCGTGCTGATATGTTAAGATTCCAGCCTGAGgtactgccatc---atcattttattgaggctgcaa---aatgaaatttatctgacattat-tcataagccactgcagtaacatttggctgaattaaattgtttctccctgtatctcttcacag
upper sequence: GLYMA09G03660.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM5G862107_T01 (Zea mays), 5'ss of exon 6
GCGGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattttttgattatttgttcaaaatctcgactcaa-taaaaatgaagcaacacgggattaaaggtgactaaaatacaaatggcataaaaaaaa-gtc----------------------
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GCTGATGAGATGGCTCAGATATTCAGGCAGAGAATAGCTCAGGCAGAGGCTATGGCTCGTGCTGACATGTTGAGATTCCAGCCAGAGgtattg--caaacgttcccttgttaatgctaccgtgtcaaatcacatttcatctaacttcaactgtgtgtgtaaatcatgtggctgagctaatcgaatcatcctcctgctgtacctcttcacag
upper sequence: GLYMA09G03660.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 6
GCGGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattttttgattatttgttcaaa---atctcgactcaataaaaatgaa--gcaacacgggattaaaggtg-actaaaatacaaatggcataaaaaaaagtc
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GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCCATGGCTCGTGCAGACATGCTTCGCTTCCAACCTGAGgtatc-attctccacttgcctgatctcgtttatccatgcttattgatttcttattgcaatcaagttccaaaagtgtacatgtttagtaaccatctaagatt-----
upper sequence: GLYMA09G03660.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv05s0077g00450.t01 (Vitis vinifera), 5'ss of exon 6
GCGGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattttttgattatttgttcaaaatctcgactcaataaaaatgaagcaacacgggattaaaggtgactaaaatacaaatggcataaaaaaaagtc--
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GCGGAGGAGATGGCTCAGACATTCAGGCAGAGAATAGCTCAAGCAGAAGCTATGGCTCGGGCAGACATGCTAAGATTCCAACCTGAGgtattttaactgctattgtttacataat-tatttttttttcccaagtggaaaggta-aaaatgaagagacagaaggatgcatgagaggccataatttgacaaMapped 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|11412222|gb|BF424233.1|BF424233EST: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAG AGTGGATTAACTCTCAGCGGTGAAGGAATCTTAGGACCACTAACTTCAGAC
genomic: CTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattt ... ttcgtttcagAGTGGATTAACTCTCAGCGGTGAAGGAATCTTAGGACCACTAACTTCAGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCTCAAGCAGAAGCTATGGCTCGTGCTGATATGCTTAGATTCCAGCCAGAGgtatttattttttgattatttgttcaaaatctcgactcaataaaaatgaagcaacacgggattaaaggtgactaaaatacaaatggcataaaaaaaagtc
- - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaaa