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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttcgaagaatgtgttcgaacgcattaaactttgaatttgaagtagtagaaatgatttttggtattatatggaagggatattcgaaatctacaa...

Basic information

species Arabidopsis thaliana
transcript AT2G24765.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G24765.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g15040.2 (Oryza sativa), 5'ss of exon 3
CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttt---tcgaagaatgtgttcgaacgcattaaactttgaatttgaagtagtagaaatgattt-ttggtattatatg-gaagggatattcgaaatctacaa
| ||||| || ||||| ||||| |||||||||||||| |||||||| || ||||||||| | |||  || |    | |||  | || |  |           || || |||   |     || |  |||| |  |||  || |  ||    ||    ||   | |   
CGATTGGGTTCAACGTGGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTCTGGGATCTCGgtgagtgtgcccccaagtctctgattcacgaggactggtttagatttttccgc----gagacaatttataagtacaatttacgacaatatccatgaggccaatt-

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G147726_T05 (Zea mays), 5'ss of exon 2
-------------------------------------CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttcgaagaatgtgttcgaacgcattaaactttgaatttgaagtagtagaaatgatttttggtattatatggaagggatattcg-----aaatctacaa
                                     | |||||||| ||||||||||| |||||||||||||| |||||||| || || |||||| | |||  |||      | || |   ||  | | ||    ||   |||   |  |||   ||||   | | |    ||  | |  | |  ||||     |||  || | 
TTGTTGGATTTGATGTGGTGCCCCGCGTGTGTTGCAGCAATTGGATTCAACGTTGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTATGGGATCTTGgtgagttactt--ggatctcgccgccctcttttgcattcctatt--gatgagtgataatgggctgttgagcgatcagaagtgcaatttcgtcccaaaacgtaga-

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G147726_T01 (Zea mays), 5'ss of exon 3
CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttcgaagaatgtgttcgaacgcattaaactttgaatttgaagtagtagaaatgatttttggtattatatggaagggatattcg-----aaatctacaa
| |||||||| ||||||||||| |||||||||||||| |||||||| || || |||||| | |||  |||      | || |   ||  | | ||    ||   |||   |  |||   ||||   | | |    ||  | |  | |  ||||     |||  || | 
CAATTGGATTCAACGTTGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTATGGGATCTTGgtgagttactt--ggatctcgccgccctcttttgcattcctatt--gatgagtgataatgggctgttgagcgatcagaagtgcaatttcgtcccaaaacgtaga-

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S78_17V6.1 (Physcomitrella patens), 5'ss of exon 3
CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgtttt-cgaagaatgtgttcgaacgcattaaactttgaatttgaagtagtagaaatgatttttggtattatatggaagggatattcgaaatctacaa-
||||||| ||||| || ||||||||||| ||||||||||| || ||||| || |||||| |||||  || |  |||  |  |  ||        ||  | ||  ||||||  ||| |  || |  ||| |  | | || || | |  |   | |      |  | 
CTATTGGCTTTAATGTGGAGACTGTGCAATACAACAATATTAAATTTCAAGTTTGGGATCTAGgttcgtgtcgcgagcacaggatttttttattttttatttataatttg--gtaatttaagttttttattctctcatgtgaatgtcacccttgtgtgtcaggac

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S271_49V6.1 (Physcomitrella patens), 5'ss of exon 3
CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttcgaagaatgt---------gttcgaacgc----attaaactttgaatttgaagtagtagaaatgatttttggtattatatggaagggatattcg---aaatctacaa-------------------------------------------------------------------
||||||| ||||| || |||||||||   ||||||||||| |||||||| |||||||||||||||  || ||   || ||||          || | | |     ||| |   || ||| | || | | |   ||| |||| || ||  |     ||   |||||    || | |||                                                                     
CTATTGGTTTTAATGTGGAGACTGTGACATACAACAATATAAAGTTTCAAGTCTGGGATTTAGgttcgtgttatcagcatgttaattttttatttgtaggttcctattgagtatttaatgtcaa-tggcacctatg-ttttaggcatactgcttcagttgtattctctcaattatactcttatattttatccgttgatatgttatctgtaatatcttgtatttctaactacttgtgatgatggcag

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|125249151|gb|EL263236.1|EL263236
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACAAACAAG
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAG
EST: gi|125296023|gb|EL310108.1|EL310108
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACGAACAAG
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAG
EST: gi|124933836|gb|EL010958.1|EL010958
EST:     CAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACAAACAAGCATCAG
genomic: CAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAGCATCAG
EST: gi|124708200|gb|EH799602.1|EH799602
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GNGGACAAACAAGCATC
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAGCATC
EST: gi|19877752|gb|AU238583.1|AU238583
EST:     CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG                         GTGGACAAACAAGCATCAG
genomic: CGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAGgtatgttttc ... cctatgacagGTGGACAAACAAGCATCAG