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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatattgtcctttatctaattttaatcattattataaattcctgggttcatgctactacaattgtcctttatctgattttaaacattattataaat...

Basic information

species Glycine max
transcript GLYMA08G46570.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G46570.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 3
CCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatattgt------------cctttatctaattttaatcattattataaattcctgggttcatgctactacaattgtcct-ttatctgattttaaacattattataaat-------------------------------------------------
|  |||| ||||| |||||||| ||| | ||||| || ||  | || || || ||||||||||||||||| ||||| ||||| ||| | |||||||| ||||| ||| || |            ||||||  | |  || ||| ||         || ||  |  || |  |    | ||| || ||  |  | | || |  ||| | |   |                                                 
CATTGTACTTGGAGGCTGTTGCCATATTACCTCAGCTTGTCTTGTTGCAAAGGACTAGAAATATTGACAACTTGACCGGACAATATATATTTCTCCTTGGgtacgatcttctttccataacttccctttacttgaaatttatcgttgcgtcgttctcttgactggatacatcattgactgttctcttgccaaactctataatttagtttccctctgagtttcatacttcgattgctataccaataatgctctcttcttgcag

upper sequence: GLYMA08G46570.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0029g00180.t01 (Vitis vinifera), 5'ss of exon 3
CCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatattgtccttta--tctaattttaatcattatta--taaattcctgggttcatgctactacaattgtcctttatctgattttaaac-attattataaat
|| | || |||||||||||||| |||||||||||||| ||  | || || || ||||||||||||||||| ||||| ||||| ||||| |||||||||||||||   || ||  |  |  | |  || |    |||       || |      | |||||    | || |  | |   |  ||||||| |    |||| || |  
CCTTATACTTGGAAGCTGTTGCCATACTTCCTCAACTGGTTTTATTGCAAAGGACTAGAAATATTGACAACTTGACAGGACAATATGTTTTTCTCCTCGGgtaatcaatcgttttcaaacttttgttctgtcaattcccggccaagtgttgttgctcatgaagttgcattaatac---acatgattttcatttgttatcatga--
















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|31460895|gb|CD402923.1|CD402923
EST:     TGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTA
genomic: TGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTA
EST: gi|192306206|gb|FG996834.1|FG996834
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|6566143|gb|AW233782.1|AW233782
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|209715073|gb|BW677116.1|BW677116
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|9564202|gb|BE473711.1|BE473711
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|31305448|gb|CD390651.1|CD390651
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|31561500|gb|CD487338.1|CD487338
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTT
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTT
EST: gi|10252890|gb|BE820656.1|BE820656
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|192325724|gb|FK015081.1|FK015081
EST:     GAACTAGAAATATTGACAATTTGACTGGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: GAACTAGAAATATTGACAATTTGACTGG-ACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|10232336|gb|BE801224.1|BE801224
EST:     AGAACTACAAATATTGACAATTTGACTGGACAGTATGTCTTTCTTCTCGG                         TGCGTACAGAGGACTATACATTCTTCAA-TGCATCTATCGCTACTTTACTG
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCT-CAACTGGATCTATCGCTACTTTACTG
EST: gi|192306207|gb|FG996835.1|FG996835
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|209715072|gb|BW677115.1|BW677115
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|27424798|gb|CA936318.1|CA936318
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|208059246|gb|GD859474.1|GD859474
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|208113393|gb|GD911578.1|GD911578
EST:     AGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|7147282|gb|AW509204.1|AW509204
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|11412647|gb|BF424658.1|BF424658
EST:     AGAACTAGAAATATTGACAATGTGACTGGACAGTATGTCTTTCTTCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTAT
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTAT
EST: gi|8401987|gb|BE057621.1|BE057621
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
EST: gi|151401246|gb|EV271060.1|EV271060
EST:     AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGG                         TGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA
genomic: AGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatatt ... ctcaatgcagTGCATACAGAGGACTATACATTCTCAACTGGATCTATCGCTACTTTACTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCCTGTATTTGGAAGCTGTTGCTATACTTCCTCAACTAGTACTTTTACAGAGAACTAGAAATATTGACAATTTGACTGGACAGTATGTCTTTCTCCTCGGgtaagatattgtcctttatctaattttaatcattattataaattcctgggttcatgctactacaattgtcctttatctgattttaaacattattataaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC