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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaaggcttagaagatgttgatgcattgttaaagtagtcttgttagcttatacagctgctaggttgataaagtaatgcttgaaagcaattctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGTTGTCCAACAACTTG

Basic information

species Glycine max
transcript GLYMA13G18950.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G18950.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S28_171V6.1 (Physcomitrella patens), 3'ss of exon 1
---------------------------------------------tgaaggcttagaagatgttgatgcattgttaaagtagtcttgttagcttatacagctgctaggttga---taaagtaatgct----tgaaagcaattc----------------tttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGTTGTCCAACAACTTG
                                              |   |  | |   || | | |||  ||| |      ||||  | |  | |   | || | | ||||   | ||||  |||     ||| |||| ||                 || |||||||||  || |||| ||||||||||| || |||||||| ||||||||||||||  | || |||||||
gtgggagtgattttagtgctcgattgtctttggcctttggttttcggttaggattgttcatttcgttgctctgtgaggcggatcttacttgaatttctggttg-tggattgaaactgaagtgttgcaattgtgacagcacttagatactgtcgtgggaattgttgcagTGGTGTTGTTGCCACAGTATTTGGAGCTACTGGATTTTTAGGTCGTTATGTGATTCAGCAACTTG
















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|209703775|gb|BW670711.1|BW670711
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|151400304|gb|EV270118.1|EV270118
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|298181570|gb|HO025745.1|HO025745
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|192301726|gb|FG997640.1|FG997640
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|298190384|gb|HO032505.1|HO032505
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|151398563|gb|EV268434.1|EV268434
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|298192730|gb|HO033164.1|HO033164
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGATGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|151403355|gb|EV273165.1|EV273165
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|209718615|gb|BW662707.1|BW662707
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|254347887|gb|GR854136.1|GR854136
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|213595497|gb|DB966551.1|DB966551
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|192312569|gb|FK005027.1|FK005027
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATAGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|213591304|gb|DB959874.1|DB959874
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|151397287|gb|EV267160.1|EV267160
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|298184881|gb|HO030094.1|HO030094
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|209707137|gb|BW656754.1|BW656754
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|12774559|gb|BG239486.1|BG239486
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|14258415|gb|BG881323.1|BG881323
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|209709595|gb|BW661922.1|BW661922
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|209714364|gb|BW677064.1|BW677064
EST:     GGCGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|298174324|gb|HO017660.1|HO017660
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|192312568|gb|FK005026.1|FK005026
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATAGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
EST: gi|192300056|gb|FG991860.1|FG991860
EST:     GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAG                         TGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT
genomic: GGAGTTGGTCACCTCGTTCGTAAGGGCACTGGTGGACGATCCTCCGTCAGgtttacctca ... ctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttatacagctgctaggttgataaagtaatgcttgaaagcaattctttttgcagTGGCATTATTGCTACAGTATTTGGGGCAACTGGATTCTTAGGTCGTTATGTTGTCCAACAACTTG
                ggttgat  putative branch site (score: 5)
                                           ttctttttgc  putative PPT
                     ataaagtaat  TA-rich tract