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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacacacacacacacacacacaaagcccctctcttctctttatgccagcttatctcaaagatttaacattttggttttgcagACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAGAAGCAGGTCCTCTTGGGAATGTTCAATCAGAGATTTTGTTCCGTAAAGA

Basic information

species Arabidopsis thaliana
transcript AT5G60920.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G60920.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------------------gtaagtacacacacacacacacacacaaagcccctctcttc-tctttatgccagcttatctcaaagatttaacattttggttttgcagACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAGAAGCAGGTCCTCTTGGGAATGTTCAATCAGAGATTTTGTTCCGTAAAGA
                                      ||       ||       | | | | ||    |  || ||| |||| || | | |  ||||     || | | ||||||||| | |||| || || || |||||||||||||| ||||| ||||| |||||  | ||  |||| ||||||||||||||||| || |||||| |  | || || || ||
gtacgtcatatcttctcaagatttggttttgcaaagttgttgtctgccagctttttaaataaaaaacatgcaactgttcgtcttaatcctaac--atcttgtgaatatga-attttggttatacagATGACACTGCCATGTTATGGGGAGTCAAGTTTTACAATGATTTGCTCTCTCAAGCTGGTCCTCTTGGGAATGTGCAGTCAGAGCTACTATTTCGAAAGGA
















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|124867157|gb|EH951594.1|EH951594
EST:     CTCCTTACGCTGGACTAA                         ACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAG
genomic: CTCCTTACGCTGGACTAAgtaagtacac ... ggttttgcagACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAG
EST: gi|86076933|gb|DR372690.1|DR372690
EST:     TCAAATCTTCAGCTTCAACTACAAATCTCTTACTCCTTACGCTGGACTAA                         ACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAG
genomic: TCAAATCTTCAGCTTCAACTACAAATCTCTTACTCCTTACGCTGGACTAAgtaagtacac ... ggttttgcagACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctctcttctctttatgccagcttatctcaaagatttaacattttggttttgcagACGATACGGCGATGTTATGGGGAGTGAAGTTCTACAACGATTTCTTATCAGAAGCAGGTCCTCTTGGGAATGTTCAATCAGAGATTTTGTTCCGTAAAGA
                                 atttaac  putative branch site (score: 3)
                             aaagatttaacatttt  TA-rich tract