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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaacagatttttatctctgtcccttatgaatcttaataatgtattgtttcctttggcag

Basic information

species Arabidopsis thaliana
transcript AT4G37040.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os02g52420.1 (Oryza sativa), 5'ss of exon 4
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaacagatttttatctctgtcccttatgaatcttaataatgtattgtttcctttggcag
 || |||||||| ||||||||| | ||||| || || ||||| ||||| || |||||||| ||||| || ||||||||||| |||||  | || ||||| ||  ||  |   |||      ||| ||     | ||| ||    |   |   |   || |||  |||  |||  |     |   ||  |||
ATACCCTTCGCCACTTGGTTATTGCGGTTTTCCAAAGAGTGTCTGCACCTCAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAAgtaagccatccaaaa------ttggagataacacacacat----actgcatacatataagaaagttacaaattgacctcctttgtta-cag

upper sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaacagatttttatctctgtcccttatgaatcttaataatgtattgtttcctttggcag
 |||||||| |||||||||||| | || | ||| || ||||| ||||| || |||||||||||||| || ||||| || || |||||  | || ||||||||  ||  |   |||       |  || |    ||||  |||  ||   |       |  || ||||  |     ||  ||    ||||||
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatccaaaa-------tccagagat--aacaactttgaataaata------agaaaacttacaa-----ttaattttcatggcag

upper sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA01G39200.1 (Glycine max), 5'ss of exon 4
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaacagatttttatctctgtcccttatgaatcttaataatgtattgtttcctttggcag
 || || || ||||| || |||||  |||| || || ||||| ||||||||||| |||||||||||||||||||| |||||||||||  |  | |||||||| |  || | || ||| | |||   |  | ||||||           ||||     |  ||  ||  | |   ||| |||  ||  ||||
ATACCCATCTCCTCTCGGCTATGGTAGTTTTCCTAAGAGTGTCTGCACATCTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttc--ttctatacaagttctttt--gaagttaaaca---------tcctgtgtgaaaaaaaatttgttgacacattctttattt--gcag

upper sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0031g00820.t01 (Vitis vinifera), 5'ss of exon 4
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggt----gtttgtaggggctaaacagatttttatctctgtcccttatgaatc---ttaataatgtattgtttcctttggcag
 || ||||| || || || ||||| || || || || || || |||||||| ||||||||||||||||||||||| |||||||||||  | |||||||||||    |||  | || |       ||| | | | |      | |   |   | |||   | |  | ||   | | | ||  |   ||  | || ||||
GTACCCTTCCCCCCTAGGCTATGGTGGATTTCCAAAGAGCGTCTGCACATCAGTGAATGAATGCATTTGCCATGGAATACCAGATTCCCGTCCACTTGAGgtctattttacttaaggacttagatttcttgagccagtgtggttaagtcattgtgtttttaagtagtcaaatcacttatacaaaattgtcatttgcag

upper sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S392_8V6.2 (Physcomitrella patens), 5'ss of exon 4
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgctttt-------ttaaaaggtgtttgtaggggctaaacagatt-----tttatctc---tgtcccttatgaatc---ttaata--atgtattgtttcctttggcag---------------------------------------------------------------
 ||||| || |||||||| |||||||| || ||||| |||||||| || ||||| || || |||||||||||||| || || || ||  | || ||||||||  || |||       || | |     ||| ||  |     | | ||      | ||||    || | |  || | |    |||  |  ||||| |  |   |||   |                                                                
GTATCCCTCTCCTCTTGGCTATGGAGGCTTTCCGAAGAGTGTTTGTACTTCTGTAAACGAGTGCATTTGCCATGGCATTCCCGACTCTCGTCCTCTTGAGgttagcgtttgtggtattttataatcacttgcagtcgtggttctgtttgaaaactcatctgaagtggcaccaatcacttgggttagcagcatgtactaataattttaagatcgaaagctgtcactgcatatggtgtacccaactattgatgaaagtgacgttaattgcatgcag

upper sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaa--cagatttttatctctgtcccttatgaatct---taataatgtattgtttcctttggcag-----
||||||||| ||||||||||||||| |||| || || || ||||| || ||||| ||||| ||||| || ||||| || || || ||  | |||||||||||  | |||   || |     | ||     ||     |  |   ||||      | ||   ||  ||   | ||| ||    || |   || || |     
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgt-tggtttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac

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|125282243|gb|EL296328.1|EL296328
EST:     AGATTCAAGACCACTTGAG                         GATGGGGATATTATCAACATCGATGTCACAGTTTATTTGAAT
genomic: AGATTCAAGACCACTTGAGgtgcgctttt ... cctttggcagGATGGGGATATTATCAACATCGATGTCACAGTTTATTTGAAT
EST: gi|86077188|gb|DR372945.1|DR372945
EST:     CCAGATTCAAGACCACTTGAG                         GATGGGGATATTATCAACATCGATGTCACAGTTTATTTGAAT
genomic: CCAGATTCAAGACCACTTGAGgtgcgctttt ... cctttggcagGATGGGGATATTATCAACATCGATGTCACAGTTTATTTGAAT