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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG

Basic information

species Arabidopsis thaliana
transcript AT2G33340.3
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G324540_T01 (Zea mays), 3'ss of exon 13
gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgt-acagtgttcttcat-tatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
         ||  | | |     | |      |||| || ||  |  ||  || |   || |||| |   ||   |   | |    |   |     ||| ||||||| || |||||||| || ||    ||   ||| || ||||| |||||||||||||||||||||||||| |||
----gtgtgatttggtactgtggtgt-cactttattcaagtttgtttttaggtgatcatgctcttaaaacatgtctgataatgacatttctatctgtagTCAAATGTCGCAAAGTTTGAGGGTCATGTCGGACCAGTCACTGCTATGTCTTTCTCTGAAAATGGTTACTTCCTAGCG

upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: AC205703.4_FGT004 (Zea mays), 3'ss of exon 3
gtaaaaactatgggcttccaaactata-tgacc--tattaaaattattaattgtgt-acagtgttcttcat-tatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
          || | ||    ||| |  || ||  |||| || ||  |  ||  || |   || |||| |   ||   |   | |    |   |     ||| ||||| | || |||||||| || ||    ||    || || | ||| |||||||||||||||||||||||||| |||
---------gtgtgatttggtactgtggtgtcctttattcaagtttgtttttaggtgatcatgctcttaaaacatgtctgataatgacatttctatctgtagTCAAATATCGCAAAGTTTGAGGGTCATGTCGGACCGGTCACTGTTATGTCTTTCTCTGAAAATGGTTACTTCCTAGCG

upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 13
gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
||||| | | |    |   | ||| | |      ||||| ||  ||||| |    | | |||    ||||  | ||   ||  |   ||| |  ||||||||||| |||| ||||||||||||  |||||  ||| || || |||||||||||||| ||||| |||||||| |||
gtaaacaattt---ttcttatactttgt------ttaaagtt--taatttt----aatattcactgttatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG

upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA20G21330.1 (Glycine max), 3'ss of exon 13
gtaaaaactatgggcttccaaactatatgacctattaaaatt-attaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
          |   | |     || |||      ||||| || | |  |  | | || |||| |||  |||  | ||   ||  |   ||| |  ||||||||||| |||| |||||| |||||  |||||  ||| || || |||||||||||||| ||||| |||||||| |||
---------gtaaacattttttct-tatacttgtttaaagttcaattttaatattcaatgttattctctatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGACGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG

upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
|||| || |   | ||| |||  |   | ||||       || |||    | |      || |||| | || || || || ||||| |   |   ||||||||||||| |  ||||| || |||  |||||  || || |||||||||||||| ||||||||||||||||| |||
gtaataaattatgtcttgcaagtt---taacct----gggttgttagaattct------ttattcact-tatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG

upper sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: PP1S64_187V6.1 (Physcomitrella patens), 3'ss of exon 13
--------------------------------------------gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
                                             |  | | | |||       |  ||| |    |     | ||     || | |    |    |   |    |  || |  ||     | ||    |||| ||||| || |||||||| || ||||| ||    || || | |||||||||||||||||||||||||||  | || 
gttcgtatctctgcccctttgcaatcgtgttgctgtcaccgaacatttacattgtggtacgaatagatattttttttgcgctatttggattttatatctgatcacttatgtcccggcatttacattaacc-tggaattcagGCCAATGTTGCCAAGTTTGAAGGGCACACAGGACCCGTGACGGATATATCTTTCTCTGAAAATGGTTACTTTTTGGCT

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|116465161|gb|EG507753.1|EG507753
EST:     GAACCGGTACTTCTCAATCTGTTGTTAAGATTTGGGACGTTAAAAGTCAG                         GGCAAATGTGGGCTAAAGTTTGATGGGACACACTGGGGGAAGTTACAGCTA
genomic: GAACCGGTACTTCTCAATCTGTTGTTAAGATTTGGGACGTTAAAAGTCAGgtaaaaacta ... ttgataatagG-CAAATGTGG-CTAA-GTTTGATGG-ACACACTGGGG-AAGTTACAGCTA
EST: gi|86059921|gb|DR355678.1|DR355678
EST:     GAACCGGTACTTCTCAATCTGTTGTTAAGATTTGGGACGTTAAAAGTCAG                         GCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCT
genomic: GAACCGGTACTTCTCAATCTGTTGTTAAGATTTGGGACGTTAAAAGTCAGgtaaaaacta ... ttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCT
EST: gi|116444557|gb|EG487149.1|EG487149
EST:     GAACCGGTACTTCTCAATCTGTTGTTAAGATTTGGGACGTTAAAAGTCAG                         GCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCT
genomic: GAACCGGTACTTCTCAATCTGTTGTTAAGATTTGGGACGTTAAAAGTCAGgtaaaaacta ... ttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG
                    ttcattatagttttca  TA-rich tract