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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatacaattcgaaaagattcacactttttgtttgacaatgtagagatctaattccttggtgtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCGAGGCCTCAAGATTTCTTGTTCATCTCCGGCACTAAG

Basic information

species Arabidopsis thaliana
transcript AT3G22890.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G22890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G28980.2 (Glycine max), 3'ss of exon 3
----------------------gtatatacaattcgaa-aagattcacactttttgtttgacaatgtagagatctaattccttggtgtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCGAGGCCTCAAGATTTCTTGTTCATCTCCGGCACTAAG--
                       |   || ||   ||   |  |||||         ||   ||| |       | |||  ||  |  |  ||||||||||||||||||||||||| || || || ||||| ||||| || || || |||||||| || ||| ||||||| || ||||| |||  
gtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcatt--ttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGGT

upper sequence: AT3G22890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G28980.1 (Glycine max), 3'ss of exon 3
----------------------gtatatacaattcgaa-aagattcacactttttgtttgacaatgtagagatctaattccttggtgtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCGAGGCCTCAAGATTTCTTGTTCATCTCCGGCACTAAG
                       |   || ||   ||   |  |||||         ||   ||| |       | |||  ||  |  |  ||||||||||||||||||||||||| || || || ||||| ||||| || || || |||||||| || ||| ||||||| || ||||| |||
gtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcatt--ttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG

upper sequence: AT3G22890.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G38760.1 (Glycine max), 3'ss of exon 3
----------------------gtatatacaattcgaaaagattcacactttttg-tttgaca-atgtagagatctaattccttggtgtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCGAGGCCTCAAGATTTCTTGTTCATCTCCGGCACTAAG
                       |  ||||| |  |  ||| |||||         ||||| | ||||   |||  |     ||  |  |  | ||||||||||||||||||||||| || || || ||||| ||||| || || || |||||||| || ||| ||||||| || ||||| |||
gtaattgagaatttgccttctcattaatacactgagtgaag-ttcacttaggccactttgatatatgtgttgatg-atcattttcattcatttacagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG

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|86077424|gb|DR373181.1|DR373181
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTT-CTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|124911118|gb|EH985198.1|EH985198
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGA
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGA
EST: gi|116444819|gb|EG487411.1|EG487411
EST:     GGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
genomic: GGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|124843355|gb|EH927792.1|EH927792
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAA
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAA
EST: gi|116447940|gb|EG490532.1|EG490532
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|124759278|gb|EH849408.1|EH849408
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCT
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCT
EST: gi|125190102|gb|EL205056.1|EL205056
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATG
EST: gi|116460581|gb|EG503173.1|EG503173
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTTTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|116460580|gb|EG503172.1|EG503172
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|86082234|gb|DR377993.1|DR377993
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|125248149|gb|EL262234.1|EL262234
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCG
EST: gi|116453694|gb|EG496286.1|EG496286
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTTTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|124926073|gb|EL003971.1|EL003971
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATAATGACAAGACGCAAGGCAAGATG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATA-TGACAAGACGCAAGGCAAGATG
EST: gi|125016361|gb|EL088630.1|EL088630
EST:     AAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGA
genomic: AAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGA
EST: gi|116444818|gb|EG487410.1|EG487410
EST:     GGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTTTTCGATCCCTCG
genomic: GGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|116447947|gb|EG490539.1|EG490539
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|125164149|gb|EL190846.1|EL190846
EST:     TTCCTTTCAGG                         GTTGCTGCATATGACTAAGACGTCAAGGCAAGATGGCTTTCTTCGATCCCT
genomic: TTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGAC-AAGACG-CAAGGCAAGATGGCTTTCTTCGATCCCT
EST: gi|164183237|gb|ES006191.1|ES006191
EST:     ACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGAT
genomic: ACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGAT
EST: gi|116478451|gb|EG521043.1|EG521043
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTTTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG
EST: gi|124738234|gb|EH829636.1|EH829636
EST:     ACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCAAGGCAAGATAGGCTTTCTTCGATCCCTC
genomic: ACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGAT-GGCTTTCTTCGATCCCTC
EST: gi|116420530|gb|EG463122.1|EG463122
EST:     TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACGCGAGGCAAGATGGCTTTTTTCGATCCCTCG
genomic: TACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaa ... gtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcacactttttgtttgacaatgtagagatctaattccttggtgtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCGAGGCCTCAAGATTTCTTGTTCATCTCCGGCACTAAG
                                           gtgtaac  putative branch site (score: 3)
         tttttgttt  TA-rich tract