Sequence
atgc intronic sequence ATGC exonic sequenceCCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatcaatttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttatctcctttttctggtggaatttttttttgtaca...
Basic information
species | Glycine max |
transcript | GLYMA01G02810.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatc-aatttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttatctcctttttctggtggaatttttttttgtaca----
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GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttt--tatcatatatt-tgatttctg--tgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
upper sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G062587_T01 (Zea mays), 5'ss of exon 1
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatca-atttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttat-ctcctttttctggtggaatttttttttgtaca
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GAAAGGATGCTGCAGCGGGCAGCGAGCAATGCATATTCATGGTGGTGGGCAAGCCACATCCGCACCAAACAGTCAAAATGGCTCGACAACCACCTCCAAGgtatttgtttcatcttgtttgatcaaccttgttgcat-gatgattttcatttcacagtaaattagtaatgcatctgtctgcccttcattccttacctgtcc-
upper sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM5G856812_T01 (Zea mays), 5'ss of exon 1
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatcaatttatcttcattttctttttcatatc------aaagaacatgatgatca-actctaccatttatctcctttttctggtggaatttttttttgtaca
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------ATGCTACGGCGCGCGGCAAGCAATGCTTATTCGTGGTGGTGGGCTAGCCACATCCGCAGCACACAATCCAAATGGCTCGACAACAATCTTCAAGgtagtataatgcccgccataatgcttaagaatagatcccccacaaatgatagagttttgagaaatcgtgatttacaaccttttaacattaatgtacatca-------
upper sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G438704_T01 (Zea mays), 5'ss of exon 1
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatcaatttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttatctcctttttctggtggaatttttttttgtaca
| | ||| ||||| | || ||||||||||| |||||||||||||||| ||||||||| | | ||||| ||||||||| | || | |||| | |||| || | ||| || ||| | | | | | || || |
GAAGAGATGCTGCAGCGGGCAGCGAGCAATGCATATTCATGGTGGTGGGCAAGCCACATCCGCAGCAAACAGTCAAAATGGCTCGACAACCACCTCCAAGgtaatgaatgattcatgcatgatttttaatgtgcgctgtgtgattcgtccttgaattc-gcag-------------------------------------
upper sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
lower sequence: AT2G22560.1 (Arabidopsis thaliana), 5'ss of exon 1
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatc--------atcaatttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttatctcctttttctggtggaatttttttttgtaca
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ACGACGATGCTGCAACGAGCTGCGAGTAATGCGTATTCATGGTGGTGGGCGAGTCATATTCGAACCAAACAATCTAAATGGCTCGAACAAAACCTTCAAGgtctctccttttgaatccatgtctctttatataggtgtttgtttctaaaaagttga-gatc--tttgaggtttgatctattttttgttttgga-tatgaatttgtag-
upper sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv00s0483g00050.t01 (Vitis vinifera), 5'ss of exon 1
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatcaattt-atcttcattttctttttcatatcaaagaacatgatgatcaactctacca--tttatctcctttttctggtggaatttttttttgtaca
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------ATGTTACAAAGAGCAGCAAGCAATGCATATTCATGGTGGTGGGCAAGCCACATTAGAACAAAGCAATCTAAATGGCTTGAACAACATCTTCAAGgtacttttcttcttcaactacaacttggggtttcaatgcatttcctccaaaacacattgtataagcttgaaacataaatttttgtggaattcatatccaa---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|209701215|gb|BW660792.1|BW660792EST: TAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAG ATATGGAGGAAAAAGTGCAAACTGTTTTGAAGCTCTTAGAGGAAGAGGGAG
genomic: TAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatca ... aaaactgcagATATGGAGGAAAAAGTGCAAACTGTTTTGAAGCTCTTAGAGGAAGAGGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatcaatttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttatctcctttttctggtggaatttttttttgtaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA