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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttctttcgccttgctgcgattaagtggtatctattgaacttcgggaaacaagaacatagtgataaaacgaaaactttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTGGTTCAGTATAATGTCACTCGGGGTTTGCGTTGTGGTTGTGGGTTCACAG

Basic information

species Arabidopsis thaliana
transcript AT1G21900.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21900.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA04G43030.1 (Glycine max), 3'ss of exon 3
-----gtgtgtttctttcgccttgctgcgattaa---gtggtatctattgaacttcgggaaacaagaac-atagtgataaaacgaaaactttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTGGTTCAGTATAATGTCACTCGGGGTTTGCGTTGTGGTTGTGGGTTCACAG
             || |    ||  ||| | | |    |  ||| | ||||           ||| |   ||  |                | | | ||||||||| |||||| | ||||| ||||||||||| ||  | ||||| ||||||||||||||  | || || ||  | ||| || |||||   || |  || 
tgagaaacaagacctataaaattattgcaaatcattcattatatatgttgattaatacatttcaaaacttattttccccttttcttggacattgctacagGGAAGCAGAGATGAGGGAAGTTAGTGAAACAACGAATGCTAGAGTCGCTTGGTTCAGTATCTTTTCTCTTGGCATCTGCATTTTGGTTTCAGGGTTGCAA

upper sequence: AT1G21900.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G11710.1 (Glycine max), 3'ss of exon 3
---------gtgtgtttctttcgccttgctgcgattaagtggtatctattga--acttcgggaaacaagaacatagtgataaaacgaaaactttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTGGTTCAGTATAATGTCACTCGGGGTTTGCGTTGTGGTTGTGGGTTCACAG
           |   | || |    ||  ||| | |   |  | | | ||||  ||| |     | ||   | |  |       |    || |||  | ||||||||| |||||| | ||||| ||||||||||| ||  | ||||| ||||||||||||||  | || || ||  | ||| || |||||   || |  |||
tggctgagaaagaactcctgtaaaattattgcaaatcgttcat-tatgttgattactacatttcaaaactcccttttcccttttcttggacattgc-tacagGGAAGCAGAGATGAGGGAAGTTAGTGAAACAACGAATGCTAGAGTCGCTTGGTTCAGTATCTTTTCGCTTGGCATCTGCATTTTGGTTTCAGGGTTGCAG
















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|86084949|gb|DR380708.1|DR380708
EST:     GAAGGGTTGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAG                         GGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
genomic: GAAGGGTTGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAGgtgtgtttct ... ttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
EST: gi|116421116|gb|EG463708.1|EG463708
EST:     GAAGGGTTGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAG                         GGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
genomic: GAAGGGTTGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAGgtgtgtttct ... ttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
EST: gi|164050622|gb|ES201961.1|ES201961
EST:     TGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAT                         GGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
genomic: TGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAGgtgtgtttct ... ttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
EST: gi|164214162|gb|ES034224.1|ES034224
EST:     GGGTTGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAG                         GGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
genomic: GGGTTGGTGCTGTCGATTCGTGAGAACTTAAACTATATAAAAGACAGgtgtgtttct ... ttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTG
EST: gi|124848589|gb|EH933026.1|EH933026
EST:     TTAAACTATATAAAAGACAG                         GGAAGCGGAGGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTT
genomic: TTAAACTATATAAAAGACAGgtgtgtttct ... ttggatgcagGGAAGCGGA-GATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattgaacttcgggaaacaagaacatagtgataaaacgaaaactttggatgcagGGAAGCGGAGATGCGAGAAGTGAGTGAAACAACCAACTCAAGAGTGGCTTGGTTCAGTATAATGTCACTCGGGGTTTGCGTTGTGGTTGTGGGTTCACAG
                             tgataaaa  TA-rich tract