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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCTATCATCAGACTCTTCTCAGCATGTCAGATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagtttgcaaacagagatgtgttggttcataatgcacaaattcattttagcatcttaatgattatgactatgtccaactgtttttcgtcctgat...

Basic information

species Arabidopsis thaliana
transcript AT3G25800.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 7
GAGCTATCATCAGACTCTTCTCAGCATGTCAGATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgt----aagagagtttgcaaacagagatgtgttggttcataatgcacaa-attcattt-tagcatcttaatgattatgactatgtccaactgtt-tttcgtcctgat-------------------------------------
||  | |||||||| || |||||||||||  | || || ||||| |||||||| ||||||||||| || |||||||| |||||    |  | | | |    | | |  | |  | |   ||||| || |  |||  |||  | || ||| |   ||     | | | | ||  ||  |||    |  |                                     
GAATTGTCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCTTCAGTTATTATGGGAATGGCCCCGGTCTTGGGAAAGgtcacaagcaaaatatcttcataaaattttacttgaa-ataattcaaattatttgtttgcaacagctttactgtt-cagttgtttactaccattgcttcacgattgttggaaacctgacttgctttgtttctggcattctgtag

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 7
GAGCTATCATCAGACTCTTCTCAGCATGTCAGATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagtttgca--aacagagatgtgttggttcataatgcacaaattcattttagcatcttaatgattatgactatgtccaactgtttttc--gtcctgat----
||  |||||||||| || |||||||||||  | || || ||||| || ||||| |||||||||||||| || ||||| |||||  |||   | |||   |  |  || | |  |||  | ||| | ||| | | | |      | | | || |  | | |     || |||| ||  ||  | ||    
GAATTATCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCATCGGTTATTATGGGAATGGCTCCTGTATTGGGAAAGgtgtgagctctagcagtgaatgcaatatatcagtt--tgatggaaaaaattactct------tcagtcatcagtagtgttagttaccgtttctcctgttgtaatgggg

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 7
GAGCTATCATCAGACTCTTCTCAGCATGTCAGATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagtttgcaaacaga----gatgtgttggttcataatgcacaaattcattttagcatcttaatgattatgactatgtccaactgtttttcgtcctgat
||  | |||||||| ||||||||||||||| | ||||| ||||| ||||| |||||||||||||||||||| ||||| ||||||  || ||  |  | |||     |  ||  | ||||   |  ||  ||| ||  ||| |    | ||||   ||  |  | |     |    | || |    
GAATTGTCATCAGATTCTTCTCAGCATGTCCGGTCTGCTTTGGCTTCAGTAATAATGGGAATGGCTCCAGTGTTGGGAAAGgtataagtgtcagatatcagtttctgcagttattgttctctagacaggaatacacattatctgtatcatgaagttgtttggggcttgagggcccttgtac----

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 7
GAGCTATCATCAGACTCTTCTCAGCATGTCAGATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagtttgcaaacaga----gatgtgttggttcataatgcacaaattcattttagcatcttaatgattatgactatgtccaactgtttttcgtcctgat-
||  | |||||||| ||||| ||||||||| | ||||| ||||| ||||| |||||||||||||||||||| ||||| ||||||  || ||     | | |     |  ||  | ||||   |  || |||| ||  ||| |    | ||||   |||       |   |||||   | | |||  
GAATTGTCATCAGATTCTTCACAGCATGTCCGGTCTGCTTTGGCTTCAGTAATAATGGGAATGGCTCCAGTGTTGGGAAAGgtataagtgtcaaatatctgtttctgcagttattgttctctagacagaaatacacattatcggtatcatgaaggtga----aatctgttgtttgggg-cttgagg

upper sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 5'ss of exon 6
GAGCTATCATCAGACTCTTCTCAGCATGTCAGATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagtttgcaaacagagatgt-gttggttca--taatgcacaaattcattttagcatcttaatgattatgactatgtccaactgtttttcgtcctgat--
||  | |||| ||| || || ||||||||| | ||||| ||||| |||||| |||||||||||||||| ||||| || |||||||||    ||   ||  |   ||  ||||   ||  ||| | | |   |   |  |   || |     | |||     ||  ||  |    | ||| || |  
GAATTGTCATTAGATTCGTCCCAGCATGTCCGCTCTGCCTTGGCTTCAGTTTTAATGGGAATGGCTCCCGTCTTAGGAAAGgtaaga---cttcataatggttgtgcagttgacacagttaaaggaaaggattcatcaatagtcatttcattcatggaagggttgaa--gacaattgtcatggttg

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|125014859|gb|EL087128.1|EL087128
EST:     ATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAG                         GATGCAACAATTGAGCATCTCCTTCCAATCTT
genomic: ATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagt ... tctattttagGATGCAACAATTGAGCATCTCCTTCCAATCTT
EST: gi|164131740|gb|EL975680.1|EL975680
EST:     GATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAG                         GATGCAACAATTG
genomic: GATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagt ... tctattttagGATGCAACAATTG
EST: gi|86040356|gb|DR336111.1|DR336111
EST:     GATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAG                         GATGCAACAATTGAGGCATCTCCTTCCAATCTTTCTTTCTCTATTTGAAAG
genomic: GATCTGCATTGGCCTCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagagagt ... tctattttagGATGCAACAATTGAG-CATCTCCTTCCAATCTTTCTTTCTCTATT-GAAAG