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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGACCTTGGAGTACAGTCATAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaatgagaacaatcttctgcagtttagttcatgtgacagtttgaaaagttagttttttgaagttatattgttttttacttgcag

Basic information

species Glycine max
transcript GLYMA10G32690.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32690.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv05s0049g01420.t01 (Vitis vinifera), 5'ss of exon 5
GAAGACCTTGGAGTACAGTCATAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaatgagaacaatcttctgcagttt--------agttcatgtgacagtttgaaaagttagttttttgaagttatattgttttttacttgcag
|||||   ||| |   ||| |  |||||||||   || || ||||||||||| || |||||||||||||||||| || |||| | || |||||  |  |           | || ||| |   || ||  ||  |     |   ||||  |  ||  ||| | ||||||
GAAGAGGATGGGGGTTAGTGAGGAACAAAGTTCGGAAAGACTACCCTTCTGTACAATTGACTGCATGGAAGgtaaggaaatggggaccatctttggttggcacataaggaaatttatgag-tggtgtgttaaactcacaatacaaagtgttgatgcctttga-ttgcag
















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|193435589|gb|FK401965.1|FK401965
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         TTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCT
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTT-GGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCT
EST: gi|193340630|gb|FK307089.1|FK307089
EST:     TAAACAAAGTTAAAAAGGATTA-CCTTCTGTTCAGTTGACTGCATGGAAG                         TTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
EST: gi|6725195|gb|AW309594.1|AW309594
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         TTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
EST: gi|193420460|gb|FK390467.1|FK390467
EST:     AAACAAAGTTAAAAAGGATTACCCTTCTGTTACAGTTGACTGCATGGAAG                         TTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
genomic: AAACAAAGTTAAAAAGGATTACCCTTCTGTT-CAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
EST: gi|298178523|gb|HO024258.1|HO024258
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         CTTTAGCCTATAGTTGGTTGGGTGA
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGA
EST: gi|192308868|gb|FK002092.1|FK002092
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         TTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
EST: gi|192308867|gb|FK002091.1|FK002091
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         TTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
EST: gi|151408707|gb|EV278515.1|EV278515
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         TTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTTTTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCTC
EST: gi|7285244|gb|AW597731.1|AW597731
EST:     TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAG                         TTCTTG-CCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCT
genomic: TAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaat ... ttacttgcagTT-TTGGCCTATAGTTGGTTGGGTGAATTACCAGTATATGCCTCTGCAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGACCTTGGAGTACAGTCATAAACAAAGTTAAAAAGGATTACCCTTCTGTTCAGTTGACTGCATGGAAGgtatggcaatgagaacaatcttctgcagtttagttcatgtgacagtttgaaaagttagttttttgaagttatattgttttttacttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG