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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaatattaaatcatttgacaagtatgtttctggttttccccatttgatgcttactcacttggttgtcttggtttgtacagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATATGGGACTTTGGACTCCAACGCTGAAAAACAAATTAATTAATGAGAATGGT

Basic information

species Arabidopsis thaliana
transcript AT2G21790.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G21790.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 3'ss of exon 13
gtatgtgaatattaaatcatttgacaagtatgtttctggttttccccatttgatgcttactcacttggttgtcttggtttgtacagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATATGGGACTTTGGACTCCAACGCTGAAAAACAAATTAATTAATGAGAATGGT
|| ||| | ||     |  || |       || |  ||  |  |  ||  || |  | | | | || |||   ||   || | |||||| || || || |||||||| |||||||||||||||||  | ||||| |||||  ||||||||||| | |||||||| ||  ||||| ||||  |||||
gtttgtaactacactgttcttag-------tgctcgtg-ctcactacaggtgcttatgattgattttgtttaatt--cttttccagTGGGGAGTTTGTTGTGGTTAACAAGCATCTTCTCCATGATTTGACTGAAATGGGTGTTTGGACTCCAGCTCTGAAAAATAAGATAATTTATGAAGATGGT

upper sequence: AT2G21790.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 13
gtatgtgaatat-taaatcatttgacaagtatgtttctggttttccccatttgatgcttactcacttggttgtcttggttt--gtacagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATATGGGACTTTGGACTCCAACGCTGAAAAACAAATTAATTAATGAGAATGGT
|| ||| |  ||     | | ||    ||  |||||    |||  |  |  || ||| ||     ||| |  |  |  |||   | |||||| ||||| || |||||||| ||||||||||| |||||  | ||||| |||||  |||||||||| || ||||||||| |  ||||  ||||  |||||
gtctgtaacaatactctttacttctttagagtgtttacattttgacttacatg-tgcatatatgattgatctttctatttttattccagTGGGGAATTTGTTGTGGTTAACAAGCATCTTCTTCATGATTTGACTGAAATGGGCATTTGGACTCCTACTCTGAAAAACCAGATAATATATGATGATGGT

upper sequence: AT2G21790.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G304362_T01 (Zea mays), 3'ss of exon 13
gtatgtgaatat-taaatcatttgacaagtatgtttctggttttccccatttgatgcttactcacttggttgtcttggtttgta---cagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATATGGGACTTTGGACTCCAACGCTGAAAAACAAATTAATTAATGAGAATGGT
|| ||| |  ||       | ||    ||  |||||    | |     |  || |||  |     ||  |  |  |  ||| |    |||||| ||||| || ||||| || ||||||||||| ||||| || ||||| |||||  |||||||||| ||  |||||||| |  ||||  | ||  | |||
gtctgtaacaatactccctacttctttagggtgtttacattgtgatgtacatg-tgcacatgtgattaatctttctattttttgttccagTGGGGAATTTGTTGTGGTCAACAAGCATCTTCTTCATGATCTGACTGAAATGGGCATTTGGACTCCTACTTTGAAAAACCAGATAATATACGACGACGGT

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|124901785|gb|EH975865.1|EH975865
EST:     GAATGTTTTGAGCCCTACACATCAAACATCTACAGCCGCAGAGTCTTGAG                         TGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCA
genomic: GAATGTTTTGAGCCCTACACATCAAACATCTACAGCCGCAGAGTCTTGAGgtatgtgaat ... gtttgtacagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCA
EST: gi|125288028|gb|EL302113.1|EL302113
EST:     TCTACAGCCGCAGAGTCTTGAG                         TGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATAT
genomic: TCTACAGCCGCAGAGTCTTGAGgtatgtgaat ... gtttgtacagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctggttttccccatttgatgcttactcacttggttgtcttggtttgtacagTGGTGAATTCGTAGTGGTTAATAAGCATCTTCTCCATGACCTAACTGATATGGGACTTTGGACTCCAACGCTGAAAAACAAATTAATTAATGAGAATGGT
                          tactcac  putative branch site (score: 1)
                atttgat  TA-rich tract