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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatgattgacacttgatataagatgcatttgagttttgcatagggaaagcaataaatattgcaccatatgttgctgaataatgatgtcctagaga...

Basic information

species Glycine max
transcript GLYMA01G07070.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G07070.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv01s0011g00620.t01 (Vitis vinifera), 5'ss of exon 5
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtga-gaatgattgacacttgatataaga-tgcattt---gagttttgcatagggaaagcaataaatattgcaccatatgttgctgaataatgatgtcctagaga
|||||| |||| || ||||||||||||||||||||| |||| ||||||||||||||||||||||| |||||||||||||||||||||||||| |||||||||   | |||    | |  | |   ||   | |||||    | | | | | |  | ||   ||         |    ||| |    | ||   | |   |     
GACACCTTGAGCGAGGAGTCATACAAGGACAGCACTCTGATTATGCAGCTGTTGAGAGACAACCTCACTCTCTGGACCTCTGATTTGCCTGAAGATGGAGgtactgtatggccaaaaactaaagcaaatctacatttcgaaaatatggtacataggaacacatgggagccatagacaatggtaggcattagacaagagtt-----

upper sequence: GLYMA01G07070.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S67_176V6.1 (Physcomitrella patens), 5'ss of exon 5
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatgattgacacttgatataagatgcatttgagttttgcatagggaaagcaataaa--tattgcaccata--tgttgctgaataatgatgtcctagaga-----------------------------------------------------------------------------------------------
|| ||  ||||||||||||| |||||||||||||| |||||||||||| || |||| || || |||||| | ||||| || ||| | |  ||||| |||||| |   |  | |    | | |  |    |  | |   | | | ||  |     |  |  |  |  || |  |||  |||||  |  |   ||||  ||  ||                                                                                                
GATACGTTGAGTGAAGAGTCGTACAAGGACAGCACATTGATCATGCAGTTGCTGAGGGATAATCTGACTTTGTGGACATCGGATCTCCAGGAGGAGGGAGgt-attgtactcgttgatcgctgcagtg-gtttatagttgtgggatgagttgtactgtggagctgatgtatgatacttgttgacgggtttggatgctctgaagtttgctttgattgtttgtattgaagcgcacttaaaaacagaaatggtcgaagaggatgtttgagcttggtgctgaatcgatgggttgtgcgttcag

upper sequence: GLYMA01G07070.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S348_15V6.1 (Physcomitrella patens), 5'ss of exon 5
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatgattgacacttgatataagatgcatttgagttt-tgcatagggaaagcaa-taaatattgcaccata-tgttgctgaataatgatgtcctagaga
|| ||  |||| || ||||| |||||||||||||| ||||||||||||||  | || |||||||||||||| ||||| || ||| |||  ||||| ||||||| | |    ||   |  | |  |    |  |  | ||   || ||||||| ||    |     |||  |  |  ||    ||  ||  |      |     
GATACGTTGAGCGAGGAGTCGTACAAGGACAGCACGTTGATCATGCAGCTACTAAGGGACAACCTGACTCTGTGGACGTCGGATCTGCAGGAGGAGGGAGgtgggtagacgtgtggcgcggtgcagtg-gtttgcgggtggatggatagggagagggggtgtgggttgtgcgttggtgggagtgtgtagcgggcgtgtgat--

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|21638509|gb|BM139555.1|BM139555
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|18735212|gb|BM528632.1|BM528632
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|192303428|gb|FG997458.1|FG997458
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTTTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTTTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|12773324|gb|BG238251.1|BG238251
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|58019744|gb|CX706486.1|CX706486
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|58019157|gb|CX705899.1|CX705899
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|21889266|gb|BQ742479.1|BQ742479
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|214004600|gb|DB988970.1|DB988970
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|12773840|gb|BG238767.1|BG238767
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|23733546|gb|BU764972.1|BU764972
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|58015355|gb|CX702097.1|CX702097
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|58019309|gb|CX706051.1|CX706051
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|58022129|gb|CX708870.1|CX708870
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|192302132|gb|FG995812.1|FG995812
EST:     GTTGAGAAACAACCTGACTCTCTGGACCTTTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTTTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|26057311|gb|CA800225.1|CA800225
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
EST: gi|58018950|gb|CX705692.1|CX705692
EST:     GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAG                         GTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG
genomic: GTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatga ... tctcatgcagGTGAGGACAGCATAAAAGCTGAAGAAACCAAACCTTCTGAGCCTGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACCCTGAGTGAAGAGTCATACAAGGACAGCACTTTGATCATGCAGCTGTTGAGAGACAACCTGACTCTCTGGACCTCTGATTTGCCTGAGGATGGAGgtgagaatgattgacacttgatataagatgcatttgagttttgcatagggaaagcaataaatattgcaccatatgttgctgaataatgatgtcctagaga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA