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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacctcaaatgttctcatcttatagaggaatcttcttgcatttcagtttttacagctttgtaaacttaacctggttgctattatcaaaagGGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG

Basic information

species Arabidopsis thaliana
transcript AT5G59290.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 3'ss of exon 7
gtaaacctcaaatgttctcatcttatagaggaatcttcttgcatttcagtt-tttacagctttgtaaacttaacctggttgctat-tatcaaaagGGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG
|||   ||    | |    |   || |    | |  || |  ||||   |  | ||  ||   ||  |||||      ||| | |   |||  ||| ||  |||||||||||||||| || ||||| || || |||||  ||||||||||||| ||||| || ||||||||||
gtacgtctgttctatcacaaa--tacactacatttatcctatattttcttaatctagtgcaaagttcacttacttgaattgatttacttcatcagGAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGTTTGACTATCACAGGCAGCATGGCATTG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 7
-gtaaacctcaaatgttc-tcatcttatagaggaatcttcttgc-atttcagtttttacagctttgtaaa----cttaacctggttgctattatcaaaagGGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG
    ||  |  ||||  | ||  |||  | |   | | | |    || ||      |   ||||| | ||    || ||| |         ||| || ||| ||||||||||| ||||| || |||||||| || || ||||| ||||||||||| || || || || ||||| || |
taggaatttggaatgaccatcgactttaatatataccatatcattatctcttggaatgttgctttatcaatagcctaaacataaaaatatgtatgaacagGAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G06980.2 (Glycine max), 3'ss of exon 6
-------------------gtaaacctcaaatgttctcatcttatagaggaatcttcttgcatttcagtttttacagctttgtaaacttaacctggttgctattatcaaaagGGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG
                    || |||| |  ||| ||  | | ||      ||||  |   || |   ||||  ||      ||||| |||      ||    | |  | ||| ||||||||||| ||||| || |||||||| || || ||||| ||||||||||| || || || || || || || |
aatgatcatcgactttaatatataccttatctgtccttttatcatg-----atctcttgatatgttgcttttatcaatagcctaaacataa---aaatg----tgtgcacagGAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCACGGAATCG

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|124925132|gb|EL003153.1|EL003153
EST:     CTCATCCACCCTCAACCAGAGAGCTACTGGGGAAATGTCAACCCTATTG                         GGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGT
genomic: CTCATCCACCCTCAACCAGAGAGCTACTGGGGAAATGTCAACCCTATTGgtaaacctca ... ttatcaaaagGGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcatttcagtttttacagctttgtaaacttaacctggttgctattatcaaaagGGGTTCGGAGTTGCTATGACGAAGGCAAGCGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG
                            acttaac  putative branch site (score: 3)
                                           tattatcaaaa  TA-rich tract