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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaaagttttgacctctatctgtcctttaaagttatcgtatgaaaatttctgttacttgactcatctttttgcttggatctgctaatactgtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATATGGCTTCTCCCATATTTCCTGCCAATACATCCAG

Basic information

species Arabidopsis thaliana
transcript AT2G07050.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os11g08569.1 (Oryza sativa), 3'ss of exon 4
gtactaaagttttgacctctatctgtcctttaaagttat--cgtatgaaaatttctgttacttgactcatctt----tttgcttggatctgctaatactgtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATATGGCTTCTCCCATATTTCCTGCCAATACATCCAG
||| |    ||   ||   | | |||   |   | ||||  | | | ||| ||| |   | | |  | ||        || | | | |    |     | | |    ||||||||||||  ||||| |||||||| ||||||||| ||||||| ||| |||  ||  | || |||   |||||  | || ||||
gta-tgggattaatacacttctttgtttatggcatttatgccatttcaaactttttcaaattggttttatagagaagcttccgtagtttcatttcacttattatctcagGTACTTGGAGTATTTGATTGGTCCGGTAATAACCCAGTGCCACCAGAGTTATTACTATTGCCGTATCAACTGCCGTTTCACCCAG

upper sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 5
gtactaaagttttgacctctatctgtcctttaaagttatcgtatgaaaatttctgttacttgactcatctttttgcttggatctgctaatactgtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATATGGCTTCTCCCATATTTCCTGCCAATACATCCAG
        |||  || ||| | || |  ||| | | ||   ||||  |  || || ||    | | || | |        || |     |  |||    | ||||||||||||  | ||||||||| |||||||| || ||||| |||||||||||||| || |||||  | || ||| | |||||||
--------gttaagatctcaacct-tattttgatgatag-atatggca--ttgtggtat---atttatttct-------aattt-----tgttgtggg-atagGTACTTGGAGTGTATGAATGGTCTGGAAATAATCCCCTGCCCCCTGAGATATGGCTCCTTCCATACATGCTTCCATTTCATCCAG

upper sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 5
gtactaaagttttgacctctatctgtcctttaaagttatcgtatgaaaatttctgttacttgactcatctttttgcttggatctgctaatactgtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATATGGCTTCTCCCATATTTCCTGCCAATACATCCAG
||   |  || ||  | ||| |   |  |  | ||| | | |   |   ||   |  |||  |   || | |||  || |        ||| ||  || |  |||||||||||  ||||||||||| || ||||| || ||||| ||||| ||||||||||| || ||| |||| ||| | |||||||
gt-tcagtgtattttcttcttttcattttaaacagtgaactt--catgtttatgggcactccagagatatgtttaatttgtgtattgcataatggtaaca--gGTACTTGGAGTATTTGAATGGTCTGGCAATAATCCTCTGCCCCCTGAAATATGGCTTCTTCCCTATATCCTACCAGTCCATCCAG

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|124857295|gb|EH941732.1|EH941732
EST:     ATCATGGTGGTGCTACCAATATTACATCTTGGGGGAAAATGTGGCTATCG                         GTACTTGGAGCTTTTGAATGGTCCGGAAATAACC
genomic: ATCATGGTGGTGCTACCAATATTACATCTTGGGGGAAAATGTGGCTATCGgtactaaagt ... gtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACC
EST: gi|124714280|gb|EH805682.1|EH805682
EST:     TTACATCTTGGGGGAAAATGTGGCTATCG                         GTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATA
genomic: TTACATCTTGGGGGAAAATGTGGCTATCGgtactaaagt ... gtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctgttacttgactcatctttttgcttggatctgctaatactgtaaataaagGTACTTGGAGCTTTTGAATGGTCCGGAAATAACCCACTGCCACCTGAGATATGGCTTCTCCCATATTTCCTGCCAATACATCCAG
                                   tgctaat  putative branch site (score: 2)
                                      taatactgtaaataaa  TA-rich tract