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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttctgcttttgctttcatttttgattaatatatggtcgtggataaaaaaagcttgacgaatggtcttgattgatatgttgtgacttgaattggttagGTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAATCCAGCAACTGCACGATCAGCGTGTTGTACTTATTAACCTG

Basic information

species Arabidopsis thaliana
transcript AT4G26510.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G45270.1 (Glycine max), 3'ss of exon 2
gtgagttctgcttttgctttcatttttgattaatatatggtcgtggataaaaaaagcttg-----acgaatggtcttgattgatatgttgtgacttgaattggttagGTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAATCCAGCAACTGCACGATCAGCGTGTTGTACTTATTAACCTG
     | ||   |  | |   |  ||||  ||   | |  ||     | | ||    |          |||| |  | |    ||| || || | |    ||   |||||||||||| || |||||||| || ||||| || |||||||||||||| || ||||| || || ||||| || ||||||||| |||| | |
-----tacttgatgaggtcctaaatttggataccttgttttcaattcttacaacttttcttttatcttaatgattctaacacttattttttgtcatatgatg--cagGTGTTGCTGGGGGTGCAGCATCTGGCAAGACAACAGTTTGTGATATGATTATTCAGCAGCTTCATGATCAACGAGTTGTACTTGTTAATCAG

upper sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G08180.1 (Glycine max), 3'ss of exon 2
---gtgag-ttctgcttttgctt---tcatttttgattaatatatggtcgtggataaaaaaagcttgacgaatggtcttgattgatatgttgtgacttgaattggttagGTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAATCCAGCAACTGCACGATCAGCGTGTTGTACTTATTAACCTG-
    |||| | ||   |||| ||   |  ||||  |||  || |   |      ||       ||| | || |  |  | | | || | |||| |  |||  ||   |||||||||||| || |||||||| || ||||| || |||||||||||||| || ||||| || || ||||| || ||||||||| |||| | | 
ttcatgaggtcctaagtttggttaccttgttttcaattcttacaacttttcttttat------cttaatgattcttactcactcattttttgtcatatga--tg--caggTGTTGCTGGGGGTGCAGCATCTGGCAAGACAACAGTTTGTGATATGATTATTCAGCAGCTTCATGATCAACGAGTTGTACTTGTTAATCAGG

upper sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 3'ss of exon 2
gtgagttctgcttttgctttcatttttgattaatatatggtcgtggataaaa---aaagcttgacgaatggtcttgattgatatgttgtgacttgaattggttagGTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAATCCAGCAACTGCACGATCAGCGTGTTGTACTTATTAACCTG
    ||  || |      ||  | ||||       | |  || |   |  ||   | || || |   | | | |   |   | | |      ||  || || ||||||||||||| || ||||| || || || ||||| |||||||| ||||| ||  |||| ||||| |||||||||||||||||  | |||| |
----gtgttgttagatgcttgttgtttggcactctttttatcatttttttaactcatagtttaaaacacg-tgtatgtgattctatcaaacattatatgggctagGTGTTGCTGGGGGTGCAGCTTCTGGGAAAACTACAGTTTGTGACATGATTATTGAGCAGCTGCATGATCAGCGTGTTGTACTAGTAAACCAG

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|19876190|gb|AU237021.1|AU237021
EST:     GGAAACCACTTCTGCATCAGAAGATATCCAAAGACAGCCTTTTGTAATAG                         GTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAA
genomic: GGAAACCACTTCTGCATCAGAAGATATCCAAAGACAGCCTTTTGTAATAGgtgagttctg ... aattggttagGTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaaaaagcttgacgaatggtcttgattgatatgttgtgacttgaattggttagGTGTTGCTGGAGGCGCAGCATCGGGAAAGACTACTGTTTGTGATATGATAATCCAGCAACTGCACGATCAGCGTGTTGTACTTATTAACCTG
                         gattgat  putative branch site (score: 4)
                          attgatat  TA-rich tract