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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtacttctgcatccttttcataaagagccttccatcaaatgtttgtcctaaaaggtttacaactttgtatgcag

Basic information

species Arabidopsis thaliana
transcript AT1G77810.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77810.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtacttctgcatcctttt-cataaagagccttccatcaaatgtttgtcctaaaaggtttacaactttgtatg--cag
| ||||||||||| ||||| || ||||||||||| || |||||||| || ||||| || || || || || || || || |  ||||| || ||||||||||| ||  | ||    | |       |||   | |   | | ||    |       || |||| |||   ||| |   |||
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgt-ttcctatgccatgccatgcaaaatccttatgaccgaaaaaatact----aatgtttccaatgatgttttgtcag

upper sequence: AT1G77810.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G013079_T01 (Zea mays), 5'ss of exon 9
ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtact-tctgcatccttttcataaagag----ccttccatcaaatgtttgtcctaaaaggtttacaactttgtatgcag
| ||||||||||| ||||| || || |||||||| || ||||| || || ||||| |||||||| || || ||||| |||| ||| || || ||||||||||| ||    |     | | |  |||| |||     |  | |||| || |     |  |  | |      |  || ||| |||
ACTGGAAATTTGGGGAGGAAGGAAATAAATACTTCCGTCATGCCACGGGGCAGATATATGCCATTTCGAAAGATCTCGCTACTTATATTTCAATCAACCAgtatgtttaattcatgttcatgacatacagaagtgtctgttcatctaaaggggaactaatgatgccagtgatatt-tat-cag

upper sequence: AT1G77810.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G070708_T02 (Zea mays), 5'ss of exon 9
ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtact-tctgcatccttttcataaaga-----gcct-tccatcaaatgtttgtcctaaaaggtttacaact--ttgtatgcag
| ||||||||||| ||||| || || || ||||| || ||||||||||| ||||| |||||||| || || ||||| || | ||| || || ||||| | ||| ||    |  |  | |    |||| | |     |||| |||||| || |     |  |       | |||    |  | | |||
ACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGATCTGGCGACTTATATCTCAATCAATCGgtatgtttaattcgtgttcacgacatacaaaagggtgcctgtccatctaaagggaaactaactgatgctgcaagcgatatttttcag

upper sequence: AT1G77810.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G133613_T02 (Zea mays), 5'ss of exon 8
ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacg--------tacttctgcatccttttcataaagagcctt-ccatcaaatgtttgtcctaaaag-gtttacaactttgtatg---cag
  ||||| || |||||||| || ||||| ||||| || || || || || ||||| || |||||||||||||| || || |  ||||| |||||||||||||| |        | ||||| | || | |   |   |||     |   ||      ||  | | | | ||| || |  |   |     |||
TCTGGAAGTTCGGAGAGGACGGGAACAAGTACTTCCGCCACGCCACGGGGCAGATATACGCCATCTCCAAGGACCTCGCGACCTACATCTCCATCAACCAgtaagacaaaaccttcttcttcttcttctctctcttgagtggcactggcaggcagctgatccatatgcgttcaccatataccaccgcccag

upper sequence: AT1G77810.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv07s0031g03090.t01 (Vitis vinifera), 5'ss of exon 9
ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtacttctgcatccttttcataaagagccttccatcaaatgtttgtcctaaaaggtttaca-actttgtatgcag---------------------
| ||||||||||||||||| || || || |||||||| ||||| || || ||||| ||||||||||| |||||||| || |  || || ||  |||||||||| | ||   |      |||   |  | ||  |  |||  | |   | | | |||| ||||  | |  |  |||                         
ACTGGAAATTTGGAGAGGAGGGGAATAAGTACTTTCGGCATGCAACCGGGCAGATTTATGCCATCTCAAAGGATCTGGCCACATATATCTCTGTCAACCAgtaagaacagataatggttttcagtctacagagtctcatagattccatcttccaaaatgtttttatatataatattttaaatttttttctctagtcactg

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|86075540|gb|DR371297.1|DR371297
EST:     CAGATCTATGCCATCTCCAAGGWTCTTGCTAATTACATATCCATCAACCA                         GCCAATTTTGCATAAGTATGCCAATGAAGATGTGTCTTTAGGGTCATGGTT
genomic: CAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtactt ... ttgtatgcagGCCAATTTTGCATAAGTATGCCAATGAAGATGTGTCTTTAGGGTCATGGTT