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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaattagtggctaatggtgaactgatattaatttcttaaatgactcttgatgggaaactgcatccttctttaaaacaaaattgtaatcatttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCAATCCCCAGCACTGATGATTCCCATTCGGTGCAAATTATTTTACCACAGA

Basic information

species Glycine max
transcript GLYMA08G13300.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13300.3 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0094g01550.t01 (Vitis vinifera), 3'ss of exon 9
aaaaattagtggctaatg-gtgaactgatattaatttcttaaatgactcttgatgggaaactgcatccttctttaaaacaaaattgtaatcatttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCAATCCCCAGCACTGATGATTCCCATTCGGTGCAAATTATTTTACCACAGA
  ||  |    |||  || ||    |        | | || ||  |||           |  |  |  | ||  | || |   |  || | ||| || ||||||||||||||||| |||||||| ||||||||   ||| ||||| ||||||||||| | |||   |||||| || || || ||  ||||||| || || |
-taagatgcaagcttctgtgtttcttccctcctttctttttaaaaactaacataaaatcagagtgtgatgctaaagaagattttgttactaattgcaccagGTGAGGAAGGTTGGAAGGGTTGCTAGAGCAATCTGCATTATGAGCCACCCAATCCCAAACACCAGTGATTCTCACTCAGTTCAGGTTATTTTGCCGCAAA
















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|193684842|gb|FK624760.1|FK624760
EST:     CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
EST: gi|8404346|gb|BE059980.1|BE059980
EST:     CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
EST: gi|193688874|gb|FK627851.1|FK627851
EST:     CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
EST: gi|208035181|gb|GD836407.1|GD836407
EST:     CTGCAAAGTGTAAAAAAGTTGTTTGTGATCCATCATATTTGCCTGGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
EST: gi|192326977|gb|FK019239.1|FK019239
EST:     CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
EST: gi|4283991|gb|AI440725.1|AI440725
EST:     CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCCGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CTGCAAAGTGCAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
EST: gi|208038580|gb|GD833290.1|GD833290
EST:     CAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAG                         GTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA
genomic: CAAAAAAGTTGTTTGTGATCCATCATATTTGCCCGGCAAGgtattagaaa ... atttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttgatgggaaactgcatccttctttaaaacaaaattgtaatcatttcaacagGTGAGGAAGGTTGGTAGGGTTGCAAGAGCAATAGCCATAATGAGTCACCCAATCCCCAGCACTGATGATTCCCATTCGGTGCAAATTATTTTACCACAGA
 tcttgat  putative branch site (score: 4)
                                           tcatttc  putative PPT
                      ttctttaaaacaaaat  TA-rich tract