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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGGAGGTATTGCTGGAGCTTTTGGAGAAGGAATGATGCATCCCGTTGATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAGgtatgattaaccagacttcactttcaggggcctttggcttaggaaatacagattagacctgattgtgtgtacttaccttcatttttggagtatatcatctctaatcgtgtttagttgttgatttcag

Basic information

species Arabidopsis thaliana
transcript AT1G74240.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G74240.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G094444_T01 (Zea mays), 5'ss of exon 2
ATGGGGAGGTATTGCTGGAGCTTTTGGAGAAGGAATGATGCATCCCGTTGATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAGgtatg--attaaccagacttcactttcaggggcctttggcttaggaaatacag--attagacctgattgtgtgtacttaccttcatttttggagtatatcatctctaatcgtgtttagttgttgatttcag
 |||||||| || || || || ||||| ||||| ||||||||||| ||||| ||||| ||||| || ||||| ||||||  ||| ||||  |   || |||| ||  |||      ||||  |||       | |   | |||  |  ||||    | |  |  |||| ||  ||| |       || ||| | | |      |||| || |                   
CTGGGGAGGAATGGCAGGTGCATTTGGGGAAGGCATGATGCATCCAGTTGACACTCTGAAAACAAGGCTTCAGAGTCAAGCTATAATGACAGGGGCTAAGgtgtgagattgtttcaactttgcttgttca--cataaagtttaacacttacaatcgtaatgcacgattttg-atacatg-----gttgttgaacttttcttcatctattcctacaag--------------

upper sequence: AT1G74240.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G094444_T02 (Zea mays), 5'ss of exon 2
ATGGGGAGGTATTGCTGGAGCTTTTGGAGAAGGAATGATGCATCCCGTTGATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAGgtatg--attaaccagacttcactttcaggggcctttggcttaggaaatacag--attagacctgattgtgtgtacttaccttcatttttggagtatatcatctctaatcgtgtttagttgttgatttcag
 |||||||| || || || || ||||| ||||| ||||||||||| ||||| ||||| ||||| || ||||| ||||||  ||| ||||  |   || |||| ||  |||      ||||  |||       | |   | |||  |  ||||    | |  |  |||| ||  ||| |       || ||| | | |      |||| || |     | |           
CTGGGGAGGAATGGCAGGTGCATTTGGGGAAGGCATGATGCATCCAGTTGACACTCTGAAAACAAGGCTTCAGAGTCAAGCTATAATGACAGGGGCTAAGgtgtgagattgtttcaactttgcttgttca--cataaagtttaacacttacaatcgtaatgcacgattttg-atacatg-----gttgttgaacttttcttcatctattcctacaaggctcag--------

upper sequence: AT1G74240.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA04G32470.1 (Glycine max), 5'ss of exon 2
ATGGGGAGGTATTGCTGGAGCTTTTGGAGAAGGAATGATGCATCCCGTTGATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAGgtatgat--taacc-agacttcactttcaggg-gcctttggcttaggaaatacagattagacctgat-tgtgtgtacttaccttcatttttggagtatatcatctctaatcgtgtttagttgttgatttcag--------------
 ||||||| | |||| || || ||||| ||||||||||||||||| || |||||| | |||||| || | |||||||||  |||  | |||| || |||||||| ||   | || | |  | | ||  |  |  |  ||| | || | |  ||| |||  |   | |   ||    |||   ||||| | |||  |  |||||||  | |  |  |   |   ||    ||               
GTGGGGAGCTGTTGCGGGTGCATTTGGGGAAGGAATGATGCATCCAGTGGATACTGTTAAAACTCGATTACAAAGTCAAGCTATTCTAAATGGAATTCAGgtataatggcagcctatagataaattagaaagtactgttgacgtatgca-cacatatttaaaaagttacatgaaagcttctgttcatgtatggc-tccatcatctaaagtttttctccttctctggaaacatcattcatccgttag

upper sequence: AT1G74240.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv17s0000g07290.t01 (Vitis vinifera), 5'ss of exon 1
ATGGGGAGGTATTGCTGGAGCTTTTGGAGAAGGAATGATGCATCCCGTTGATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAGgtatgattaaccagacttcactttcaggggcctttggcttaggaaatacagattagacctgattgtgtgtacttaccttcatttttggagtatatcatctctaatcgtgtttagttgttgatttcag
|||||||| ||| ||||| |||||||| |||||||||||||||||  |||||||| | || ||  || |||||||||||  |||  | |  | |   ||||||||  || ||    |   |  |  |     |      ||  ||  | |   |       |||  ||  | || |||| || | | |  | | |||  |  ||                       
ATGGGGAGCTATGGCTGGGGCTTTTGGGGAAGGAATGATGCATCCAATTGATACTGTGAAGACCCGAATTCAAAGTCAAGCTATTTTAAGGGGAGGCCAGgtatg--taccc---ttgggcacttggcataatacaatgtacaaatgaaaatgtgagagcaattcagtacagttgccttgatatcttgcatgtttcactttaaaa----------------------

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|19877640|gb|AU238471.1|AU238471
EST:     ATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAG                         AGACAAAAGAGTATTCTACAAATGCTCCGAACTGTCTGGGTTGGTGATGGC
genomic: ATACTCTCAAAACTAGACTTCAAAGTCAAATTATCATGAATGCAACTCAGgtatgattaa ... ttgatttcagAGACAAAAGAGTATTCTACAAATGCTCCGAACTGTCTGGGTTGGTGATGGC