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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGCTTATAGTGACTCCCGCGGCCTTCCAGGAGTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatactctatacagtctcattctgttttctaatttatcttgtaaaatctttctttaaagggtctcttaagtttccaatttgttatgcaaatggattcattgcttcttgttccatttacag

Basic information

species Glycine max
transcript GLYMA01G03260.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G03260.3 (Glycine max), 5'ss of exon 5
lower sequence: AT1G23310.1 (Arabidopsis thaliana), 5'ss of exon 5
GCGCTTATAGTGACTCCCGCGGCCTTCCAGGAGTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatactctatacagtctcattctgttttctaatttatcttgtaaaatctttctttaaagggtctcttaagtttccaatttgttatgcaaatggattcattgcttcttgttccatttacag
| ||||| ||||| ||  | |||||||||||||| ||||| || || ||||||||||| |   |||||||||| ||||||| ||     | | | | ||    ||   ||   |   |||| | ||||| || |   |        | || ||  |||    |||| |                                      
GTGCTTACAGTGATTCAAGAGGCCTTCCAGGAGTTAGGAAAGAGGTTGCTGAGTTCATTCAACGGCGTGATGGGTATCCAAGgtg----attgttttcatctgcacaatgaaata-gatttttgttgtagaaacaaacccagcttaggctttttggttctttatttttag------------------------------------
















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|19053398|gb|BM732065.1|BM732065
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|120529201|gb|EH257335.1|EH257335
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|14205452|gb|BG839130.1|BG839130
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|15285990|gb|BI469890.1|BI469890
EST:     GTGAGGAATGAAGTGGCTGAGCCCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|20498717|gb|BQ273647.1|BQ273647
EST:     GTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|20814673|gb|BQ299151.1|BQ299151
EST:     GTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|7283746|gb|AW596349.1|AW596349
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|21887563|gb|BQ740776.1|BQ740776
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|23052838|gb|BU577329.1|BU577329
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|13481869|gb|BG511212.1|BG511212
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|23056339|gb|BU577717.1|BU577717
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|23064381|gb|BU579154.1|BU579154
EST:     TGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: TGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|13480374|gb|BG509717.1|BG509717
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|120491572|gb|EH219739.1|EH219739
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|20498442|gb|BQ273372.1|BQ273372
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|14205590|gb|BG839268.1|BG839268
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCACATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|15285988|gb|BI469879.1|BI469879
EST:     GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: GTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
EST: gi|193430928|gb|FK393720.1|FK393720
EST:     AAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: AAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatact ... ccatttacagTGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGCTTATAGTGACTCCCGCGGCCTTCCAGGAGTGAGGAAGGAAGTGGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtattatactctatacagtctcattctgttttctaatttatcttgtaaaatctttctttaaagggtctcttaagtttccaatttgttatgcaaatggattcattgcttcttgttccatttacag

- - - - - - - - - - - - - - - - - - - AAGGAA