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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCCGTTCTGTGTACATAAATATTCAGAAATTTGTCCAGTTCCAGCTGACAGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttcccaacccacatttatttttctcttgttcaaaagactaatctcctcagggattgcaactaacttctctgttacattgacactaactactgtgggtctcag

Basic information

species Arabidopsis thaliana
transcript AT1G27770.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G27770.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g10640.1 (Oryza sativa), 5'ss of exon 5
GGCCGTTCTGTGTACATAAATATTCAGAAATTTGTCCAGTTCCAGCTGACAGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgt-tagttcccaacccacatttatt---tttctcttgttcaaaagactaat--ctcctcagggattgcaactaacttctctgttacattgacactaactactgtgggtctcag
|| || || |||||||| ||||||||||| ||||| ||||| ||||||||||| ||||| || ||||| || || |||||||  ||||| ||| | || |||  || |        |  ||| ||   |   |||  |  | |  | | ||   | |     ||||  ||  | |||   ||||   ||     |||  ||            
GGTCGGTCAGTGTACATTAATATTCAGAAGTTTGTGCAGTTTCAGCTGACAGTCAATGTGGTCGCTCTGATAGTGAACTTCTCCTCAGCTTGCTTGACAGgtacagctaaatgttgatgttttttacctcattctactgtatagaattgatagtttcgttccgattaaaataacctttgatgttggtttcttg-taataac------------

upper sequence: AT1G27770.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G118919_T01 (Zea mays), 5'ss of exon 3
GGCCGTTCTGTGTACATAAATATTCAGAAATTTGTCCAGTTCCAGCTGACAGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttcccaacccacat-ttatttttctcttgttcaaaagactaatctcctcagggattgcaactaac-----ttctctgttacattgacactaact-----actgtgggtctcag--------
||||| || |||||||| || || ||||||||||| ||||||||||||||||| || || || || || || ||||||||||  ||||| ||||| |  ||| |      || || ||   |  |    || | |  |   |||| ||  |     | ||   || |||      ||  |||   |    | || ||||     | ||||  | ||          
GGCCGGTCGGTGTACATCAACATCCAGAAATTTGTGCAGTTCCAGCTGACAGTCAACGTCGTTGCGCTCATCGTCAACTTCTCTTCAGCTTGCCTGATAGgtaaaaaaaaaaacctcacgctgctgcgttcatctgtaggtgactgattccagtctgaatctgaaataatagacattgactggagcccgtaaacaaactcataaaatgtgcttgtcgattcatcag

upper sequence: AT1G27770.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 5
GGCCGTTCTGTGTACATAAATATTCAGAAATTTGTCCAGTTCCAGCTGACAGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttcccaacccacat-ttatttttctcttgttcaaaaga-----ctaatctcctcagggattgca-actaacttctctgttacattgacactaactac-tgtgggtctcag-
||||| || || |||||||| |||||||||||||| ||||| ||||| || ||||||||||| ||| | || ||||| ||||  || || ||  | |||||| | ||   |  |  |   ||||| || || |  |||||         | || |  |  |  || |   | || ||| |   | |  ||  |  | |  |  | ||  |  |   
GGCCGCTCGGTCTACATAAACATTCAGAAATTTGTGCAGTTTCAGCTAACTGTAAATGTTGTTGCTTTGATCGTCAATTTCTCTTCTGCTTGTTTGACTGgt-aattgtgattctgcccgttattattttcctaatcaaagttatccttttattttatttgcaatagtttattacctttttcctcattttccccatcatcatatatgaattactag

upper sequence: AT1G27770.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G04900.1 (Glycine max), 5'ss of exon 5
GGCCGTTCTGTGTACATAAATATTCAGAAATTTGTCCAGTTCCAGCTGACAGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttcccaacccacatttatttttctcttgttcaaaagactaatctcctcaggg-attgcaactaacttctctgttacattgacactaactactgtgggtctcag--------------
||||| || || ||| |||| |||||||||||||| ||||| ||||| || ||||||||||| ||| | || ||||| ||||  || || ||  | |||||| | |    |  |  |   | || || ||||  | |  | | | |||   | |    |||  |||||  || |  |||   ||    || | |          |||               
GGCCGCTCGGTCTACGTAAACATTCAGAAATTTGTGCAGTTTCAGCTAACTGTAAATGTTGTTGCTTTGATCGTCAATTTCTCTTCTGCTTGTTTGACTGgt-aatcgtgatgctgcccctgttattatcttcctaatcaaagttatccttttattttatttgaactagtttattagtttttttttgtctcatttaccccctcatcatatatgaattactag

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|116432622|gb|EG475214.1|EG475214
EST:     AGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTG                         GAAACGCGCCTCTGACTGCTGTCCAACTACTGTGGGTTAACATGATAATGG
genomic: AGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttccc ... tgggtctcagGAAACGCGCCTCTGACTGCTGTCCAACTACTGTGGGTTAACATGATAATGG
EST: gi|116441411|gb|EG484003.1|EG484003
EST:     AGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTG                         GAAACGCGCCTCTGACTGCTGTCCAACTACTGTGGGTTAACATGATAATGG
genomic: AGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttccc ... tgggtctcagGAAACGCGCCTCTGACTGCTGTCCAACTACTGTGGGTTAACATGATAATGG
EST: gi|86059592|gb|DR355349.1|DR355349
EST:     AGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTG                         GAAACGCGCCTCTGACTGCTGTCCAACTACTGTGGGTTAACATGATAATGG
genomic: AGTAAATGTTGTGGCTCTTATTGTCAACTTCTTATCAGCCTGCCTCACTGgttagttccc ... tgggtctcagGAAACGCGCCTCTGACTGCTGTCCAACTACTGTGGGTTAACATGATAATGG