Sequence
atgc intronic sequence ATGC exonic sequenceGATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttggcttaatttatttttcccccctattgtgttagtggcatttgtcattggtatacattttcttattttatgtttaattcctgtgtttgccagatgaag...
Basic information
species | Glycine max |
transcript | GLYMA20G28950.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os08g10410.1 (Oryza sativa), 5'ss of exon 4
GATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttggcttaatttatttttcccccctattgtgttagtggcatttgtcattggt-atacattttcttattttatgtttaattcctgtgtttgccagatgaag------------------------------------
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GATCGCATTATTGCTCGACTGCAACAACCTTACTCCCTCGATTGCATTCCTGTTGAAGCTGAATACCAGgttaggttt-cttatcatttcaacctgtgattttcataacaagcatgccggcccgtacatgattttattattaaaagaaccatgtggttttctgagtggatcatgtttttcctactcacctgttggtgtcttctcag
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G151580_T01 (Zea mays), 5'ss of exon 4
GATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttggcttaatttatttttcccccctattgt-----gttagtggcatttgtcat--tggtat--acattttcttattttatgtttaattcctg-tgtttgccagatgaag------------------
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GATCGTATTATTGCTCGGCTGCAACAGCCTTATTCCCTTGACTGCATACCAGTTGAAGCTGAATACCAGgtaatttatttttgttcttgtcttgcaatttctatagcaattagcaaacaacatgataatgttggcctacccctaatgcattttcattgctttctttttgcctgcttaatgtgctgatctcttgtcag
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 5
lower sequence: AT2G32980.1 (Arabidopsis thaliana), 5'ss of exon 4
GATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttggcttaatttatttt-tcccccctattgtgttagtggcatttgtcattggtatacattttcttattttatgtttaat-tcctgtgtttgccagatgaag-----------------
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GATCGCATCATTGCTCGTCTCCAACAACCTTATTCGCTAGATTGCATTCCAGTTGAAGCAGAATATCAGgt-gattcatgccattttatactatttgcaactttgaggaccttatttagtatctgaagttgcacaactggaaaacgaagatgctatgtttaatggctttgttctgctttgtttttcag
upper sequence: GLYMA20G28950.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv12s0059g01290.t01 (Vitis vinifera), 5'ss of exon 4
GATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttgg---cttaatt--------tatttttcccccctattgtgttagtggcatttgtcattggtatacattttcttattttatgtttaattcctgtgtttgccagatgaag
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GATCGCATTATAGCTCGTCTTCAACAACCATATTCACTAGATTGCATTCCAGTGGAAGCAGAATTTCAGgttggtcactcaatcaagatgcccatatttctatgttcctgttttggtgg-gtttccaaaatgtgcaaaaagtagaatctcatacactacactaaaatttt----------Mapped 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|208024965|gb|GD822411.1|GD822411EST: TACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAG AAGCAATTCTCTGAACTGCTGATGAAGGCAGCTAGTGATTATGGTGCTTTG
genomic: TACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttggcttaa ... atttgtgcagAAGCAATTCTCTGAACTACTGATGAAGGCAGCTAGTGATTATGGTGCTTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATCGCATTATAGCTCGCCTACAGCAGCCGTATTCCCTTGATTGCATTCCTGTTGAAGCAGAATATCAGgttggcttaatttatttttcccccctattgtgttagtggcatttgtcattggtatacattttcttattttatgtttaattcctgtgtttgccagatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccccc