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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactccttcacaacactttaaaataagtcatttatcaccattcctagtttcaattgtaaatttaaaacaataaagccatgattgacctcaatatccttccgaagctcatgcattcttggggtaaaaatgactgatcctttactttctgaatttacttgcagACGGATGATTTACAGGGTCACATCATTATTTGCGGATTTGGACGAATTGGGCAG

Basic information

species Arabidopsis thaliana
transcript AT4G00630.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 21
gtactccttcacaacactttaaaataagtcatttatcaccattcctagtttcaattgtaaatttaaaaca-ataaagccatgattgacctcaatatccttccgaagctcatgcattcttggggtaaaaatgactgatcctttactttctgaatttacttgcagACGGATGATTTACAGGGTCACATCATTATTTGCGGATTTGGACGAATTGGGCAG-
                                                            | ||||  || ||      |  |||  |     | |  ||  ||    |||| |  ||| |  ||  |     |  | ||||    |  | || |  || ||||| |||||||| || | ||| ||||||||||| |||||||||||| |||| ||| 
--------------------------------------------------------acgcagttaacccatatgggtttaccatttgcaattttttattttggagtgacatgaaaacttag--tagta-----tacttctttttggttggcatct-tttacagaCAGATGATTTGCAAGATCATATCATTATTTGTGGATTTGGACGAGTTGGCCAGG
















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|86068174|gb|DR363931.1|DR363931
EST:     CTCGATTTGAGTTACAAGATGTTCGAAGTTTATTACCAGTTGAAAGCGAG                         ACGGATGATTTACAGGGTCACATCATTAT
genomic: CTCGATTTGAGTTACAAGATGTTCGAAGTTTATTACCAGTTGAAAGCGAGgtactccttc ... ttacttgcagACGGATGATTTACAGGGTCACATCATTAT
EST: gi|86068176|gb|DR363933.1|DR363933
EST:     CTCGATTTGAGTTACAAGATGGTCGAAGTTTATTACCAGTTGAAAGCGAG                         ACGGATGATTTACAGGGTCACATCATTATTTGCGGATTTGGACGAA
genomic: CTCGATTTGAGTTACAAGATGTTCGAAGTTTATTACCAGTTGAAAGCGAGgtactccttc ... ttacttgcagACGGATGATTTACAGGGTCACATCATTATTTGCGGATTTGGACGAA
EST: gi|86068175|gb|DR363932.1|DR363932
EST:     CTCGATTTGAGTTACAAGATGTTCGAAGTTTATTACCAGTTGAAAGCGAG                         ACGGATGATTTACAGGGTCACATCATT
genomic: CTCGATTTGAGTTACAAGATGTTCGAAGTTTATTACCAGTTGAAAGCGAGgtactccttc ... ttacttgcagACGGATGATTTACAGGGTCACATCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcattcttggggtaaaaatgactgatcctttactttctgaatttacttgcagACGGATGATTTACAGGGTCACATCATTATTTGCGGATTTGGACGAATTGGGCAG
                      gactgat  putative branch site (score: 3)
                                            tttactt  putative PPT
               taaaaatga  TA-rich tract