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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcttagaatctctcagacaatgtttaaaacggttcgtaaatcggttttggtgttaatcattattcccgacttatgtatttgttgcagATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTTCGGGTCCACACTTGGGTTATCTATACAGTTCAAATTCCTTGTTTAATTC

Basic information

species Arabidopsis thaliana
transcript AT1G09980.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09980.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA17G26570.1 (Glycine max), 3'ss of exon 13
gtatgttcttagaatctctcagacaatgtttaaaacggttcgt-aaatcggttttggtgttaatcattattcccgacttatgtatttgttgcagATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTTCGGGTCCACACTTGGGTTATCTATACAGTTCAAATTCCTTGTTTAATTC
|| |||    |  || |   |    ||| |       |||||| |||||   |  | |   ||| |           || |   ||  ||||||| ||  ||||||| ||||     |  ||| |  |||||||| | ||| | || |||||||||||||| ||||| ||||||||||| || |||||||||||
gtgtgtc---aacattttagaagtgatggt-------gttcgtcaaatca--tccgcttgaaattaggggctaaattttgtcctttgtttgcagAGAGCATGATGGAGCCATTTCTAAGATATCTATATACATATGTTTCGGTATCTGGTCCACACTTGGGGTATCTTTACAGTTCAAACTCTTTGTTTAATTC
















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|125272197|gb|EL286282.1|EL286282
EST:     TCATCAGAGCTGCAATAGCTG                         ATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTT
genomic: TCATCAGAGCTGCAATAGCTGgtatgttctt ... tttgttgcagATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgtaaatcggttttggtgttaatcattattcccgacttatgtatttgttgcagATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTTCGGGTCCACACTTGGGTTATCTATACAGTTCAAATTCCTTGTTTAATTC
                  tgttaat  putative branch site (score: 3)
                  tgttaatcattatt  TA-rich tract