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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtcactaatacatatcatactccacttcctgagtcttactgtttttggctgattattcgttcatatgcag

Basic information

species Arabidopsis thaliana
transcript AT5G56280.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os08g39070.1 (Oryza sativa), 5'ss of exon 5
ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgag----ccttatgtcactaatacatatcatac-----------tccacttcctgagtcttactgtttttggctga-ttattcgttcatatgcag--------
|| || || || ||  ||||||| |||||||||||||| ||||| ||||||||||| || ||||| || || || || ||||||    | |  | |||  | |  || || |||           |  ||| ||  |    || |||||||||   | | || |   || ||  |         
ACTGTAGAGGCAGAGAGGATATCTGTTGATCATGTTGCCCATCTCAAACCATCTGATGGTGGCTCTGCGGCGACTCAATgtgagggttcttcttatcatcagtttatgtcttacagatattgagttgtactacccaa--tatattgtttttggaaaaatgatactgacagatatatttgagcag

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G028089_T01 (Zea mays), 5'ss of exon 5
ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtcactaatacatatcatact-ccacttcctgagtc--ttactgtttttggc-tgattattcgttcatatgcag-------------------------------------------------------------
|| || || |||||  ||||||| || || |||||||| ||||| ||||||||||| || || ||||||||||| |||||| ||| || |      ||  | | ||  |   | | ||  || |||  |   ||| ||   | ||  | | | |||  |   |                                                              
ACTGTAGAGGCTGAGAGGATATCTGTGGACCATGTTGCCCATCTCAAACCATCTGATGGTGGTTCAGCAGCAACTCAGTgtaagcattctactttgaagccctctctcaaaacaaatttatgggtcagtgggtgtcttccccgtggctttgctttctcaacaaatagtcatattatccgaggtatttttctggatagaaatgtactaaacgatgcttttgtgcag

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G080652_T01 (Zea mays), 5'ss of exon 5
ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtcactaatacatatcatactccacttcctgagtcttactgtttttggc--tgattattcgttcatatgcag----------------------------------------------------------
|| || || |||||  ||||||| || || |||||||| ||||| ||||| ||||| || |||||||||||||| |||||| ||  ||||      || |||| |||||   ||   |  | |   |  |   | ||||  || ||  ||     |||  ||                                                          
ACTGTAGAGGCTGAGAGGATATCTGTGGACCATGTTGCCCATCTCAAACCTTCTGATGGTGGCTCAGCAGCAACTCAGTgtaagagttataatttgaagacatctcataagacagccctgggggtgtcttccctgtggctttgctttctcaacattat-tagtcatactgtctgaggtatatttctggacagaattgtactaatcgatgatttcgtgcag

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 5
ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtca--ctaatacatatcatactccacttc-ctgagtcttactgtttttggctgattattcgttcatatgcag----------------
|| |||||||| |||||||||||||||||||||||||| |||||||| |||||||| || || ||||| || || || ||||||  || |   |  ||  |   |    || |    |||  | || |||     |   ||  | || ||  ||  | | |                  
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagtttttttatttctgttcttattgttaggtaattat

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 5
ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtca----ctaatacatatcata-ctccacttcctgagtcttactgtttttggctgattattcgttcatatgcag--------------
|| |||||||| ||||| |||||||||||||||||||| |||||||| |||||||| || || ||||| || || || ||| ||  || |   |    ||  |    || ||| ||  | |  ||     | |   |||   |  |   |   |||    | | |              
ACTGTTGAAGCAGAACGAATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtaagtgtttttctagactcttctttgcattatatctttattatctttcattaagcctttggagtaggggaagtgtttgatttctgttctgattgtcagg

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 5'ss of exon 5
ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtcactaata-catatcatactccacttcctg--agtcttactgtttttggctgattattcgttcatatgcag-----------------------------------------------------------------------------------
|| || ||||| ||| |||| ||||||||||||||||| ||||||||||||||||| ||||| || || ||||| || ||| |||| | | || | |  | ||| || |        || |   | | || | |    |     | || |  | || | |                                                                                      
ACGGTAGAAGCAGAAAGGATCTCAGTTGATCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAATgtaagccct-tatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcag

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|125084826|gb|EL144899.1|EL144899
EST:     TCATGTTGCACATC-TAAACCATCTGACGGAGGCTCAGCAGCAACCCAGT                         TGGCTGCTCATCTTACTGGTATACATAGTG
genomic: TCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagcctta ... tcatatgcagTGGCTGCTCATCTTACTGGTATACATAGTG
EST: gi|19876192|gb|AU237023.1|AU237023
EST:     TCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGT                         TGGCTGCTCATCTTACTGGTATACATAGTGCCATCAAGATGCTTAATAGCG
genomic: TCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagcctta ... tcatatgcagTGGCTGCTCATCTTACTGGTATACATAGTGCCATCAAGATGCTTAATAGCA
EST: gi|86085218|gb|DR380977.1|DR380977
EST:     TCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGT                         TGGCTGCTCATCTTACTGGTATACATAGTGCCATCAAGATGCTTAATAGCA
genomic: TCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagcctta ... tcatatgcagTGGCTGCTCATCTTACTGGTATACATAGTGCCATCAAGATGCTTAATAGCA
EST: gi|86054006|gb|DR349763.1|DR349763
EST:     TCANNNTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGT                         TGGCTGCTCATCTTACTGG
genomic: TCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagcctta ... tcatatgcagTGGCTGCTCATCTTACTGG