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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtattcttacgaccttttagatcaatatgatttttagggctttatgttggtagaatctgctcatgttcttagagtttggcaaaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAGGTTTTTGAGCGCCTGATTGAACCGTTTTGTTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G01690.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G01690.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G039396_T01 (Zea mays), 3'ss of exon 2
gtgtgtattcttacgaccttttagatcaatatgatttttagggctttatgttggtagaatctgctcatgttcttagagttt--ggcaaaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAGGTTTTTGAGCGCCTGATTGAACCGTTTTGTTCAG
||  ||  |||  | |   |  |  |  |    || ||  | | || ||  | |       |||    |  || || ||||  |||  ||||  ||||| || ||||| || ||||||||||| || || || |||||||||| |||||| ||||||||||| ||||| || || || ||||
gttcgtgctctccccatgctgcattttta---aatcttgtgtgtttgattgttgcg----ttgccacggggctgagcgtttctggcggaggtttcagGGCCGCGAAGAGTCAGTGGAGGAGTTCGTGCGCCGCAACCTCGGTGCTGAGGTCTTTGAGCGCCTCATTGAGCCTTTCTGCTCAG

upper sequence: AT4G01690.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G27890.1 (Glycine max), 3'ss of exon 2
gtgtgtattcttacgaccttttagatc---------aatatgattttt----------agggc--tttatgttggtagaatctgctcatgttcttagagtttggcaaaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAGGTTTTTGAGCGCCTGATTGAACCGTTTTGTTCAG
||||||  |||| |     |||   |          |||   || |            |||||   |  | ||  |    | | ||||||   |   |  ||| |||||||||||||||| ||| ||||| || || |||||||| || || ||||| ||||||||||||||||| ||  |||| || || ||||||||||
gtgtgtcctctttcctttctttgattttgtttgtcaaatgcaatgtccggaaggataaagggcaactgttcttaattttgttttctcatggaatataatgttgacaaaggtgacagGGTCATGAGGAATCGGTTGAAGAGTTTGTTCGTCGGAACCTTGGTGATGAGGTTTTTGAACGGTTGATAGAGCCTTTTTGTTCAG

upper sequence: AT4G01690.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv07s0005g02540.t01 (Vitis vinifera), 3'ss of exon 2
---------------------gtgtgtattc-ttacgaccttttagatcaatatgatttttagggctttatgttggtagaatctgctcatgtt-------cttagagtttggcaaaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAGGTTTTTGAGCGCCTGATTGAACCGTTTTGTTCAG
                      | ||  ||  ||      | | |    |||||  |     |   |  || |  | |   |    |    ||       ||||   |||| | ||||||||||| || ||| |||||||| || |||||||| || ||||| || ||||||||||||||||| |||||||| || || ||||||||||
gtgcgtgttcttaactatattctatgagtttgttgaagtatatcatggaaatatattcacatgaattgcatatatgcattcttccattgaatttctcaaacttatgttttgacgaaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAGGTTTTTGAACGCCTGATAGAGCCATTTTGTTCAG

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|124799871|gb|EH889550.1|EH889550
EST:     GGAAGATTAGAGCTGGTTTTGGTGCACTTGGCATTCGACCGTCACCTCCA                         GGTCGTGAAGAATCTGTGGAGGAGTTTGTACG
genomic: GGAAGATTAGAGCTGGTTTTGGTGCACTTGGCATTCGACCGTCACCTCCAgtgtgtattc ... aaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACG
EST: gi|86073724|gb|DR369481.1|DR369481
EST:     AAGATTAGAGCTGGGTTTTGGTGCACTTG-CAATTCGACCGTCACCTCCA                         GGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAG
genomic: AAGATTAGAGCTGG-TTTTGGTGCACTTGGCA-TTCGACCGTCACCTCCAgtgtgtattc ... aaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAG
EST: gi|124792883|gb|EH882562.1|EH882562
EST:     GAAGATTAGAGCTGGTTTTGGTGCACTTGGTCATTCGACCGTCACCTCCA                         GGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCG
genomic: GAAGATTAGAGCTGGTTTTGGTGCACTTGG-CATTCGACCGTCACCTCCAgtgtgtattc ... aaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCG
EST: gi|164101766|gb|ES142147.1|ES142147
EST:     CTTGGCATTCGACCGTCACCTCCA                         GGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAG
genomic: CTTGGCATTCGACCGTCACCTCCAgtgtgtattc ... aaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggctttatgttggtagaatctgctcatgttcttagagtttggcaaaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAGGTTTTTGAGCGCCTGATTGAACCGTTTTGTTCAG
     ttatgtt  TA-rich tract