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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATTTCTTCTCTCATCTGGAGATGCACATGAGGCAGGAGTATCCTCCTCTCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgtaataaaccaaaacccatttgcttttcctccaaatcaaaagaagtcccttgattttgaatttgacactttttgcatcttgtaacag

Basic information

species Arabidopsis thaliana
transcript AT3G55200.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G55200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G096972_T01 (Zea mays), 5'ss of exon 2
GGATTTCTTCTCTCATCTGGAGATGCACATGAGGCAGGAGTATCCTCCTCTCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgtaataaaccaaaacccatttgcttttcctccaaatcaaaagaagtcccttgattttga-atttgacactttt------tgcatcttgtaacag------
 ||||||||||||||  ||||||||||  || | |||||| |||| ||  | || || ||||| |||||||||||||||||||| |||||||| || ||||||| |            |    || |   |||    | |   | | |  ||||| | | |||  ||| | |       ||||  || |   ||      
TGATTTCTTCTCTCACTTGGAGATGCATCTGCGTCAGGAGCATCCACCATTGTGTGGAAGAGATCACATGGCTTACAGATCTGCCTATTTTCCAGTGAAGgtaaaatgttccttgaattggatttgttaaccaggcgatatataatactctgattctaatattctacaatgtcaccaagtgcacattatgttagcatgag

upper sequence: AT3G55200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G43750.1 (Glycine max), 5'ss of exon 2
GGATTTCTTCTCTCATCTGGAGATGCACATGAGGCAGGAGTATCCTCCTCTCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgta---ataaaccaaaacccatttgcttttcctccaa----atcaaaagaagtcccttgat-tttgaat--ttgacactttttgcatcttgtaacag---
 |||||||| |||||| |||||||||| |||||||||||  | || ||| | || || |||||||||||||| || |||||||| |||||||| || ||||||    ||| | |       |||| | || ||        ||   ||    |   ||| | | || ||  |     | |  | | | || ||       
TGATTTCTTTTCTCATTTGGAGATGCATATGAGGCAGGATCACCCACCTTTGTGTGGAAGAGACCACATGGCATATAGATCTGCCTATTTTCCTGTTAAGgtatacctaatcaatgttatgtttgttctttctattctgttattggaaagcattatttgctatctgtatgataagagcatcctccctgttatattttcat

upper sequence: AT3G55200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G38460.1 (Glycine max), 5'ss of exon 2
GGATTTCTTCTCTCATCTGGAGATGCACATGAGGCAGGAGTATCCTCCTCTCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgtaa--taaaccaaaacccatttgctt-ttcctccaaatca---aaagaagtcccttgattttgaatttgacactttttgcatctt----gtaacag---
 |||||||| |||||| |||||||||| |||||||||||  | || ||| | || || |||||||||||||| || |||||||| |||||||| || ||||||     |  ||| |     ||| || ||| | | | |||   |  | |   | ||  ||   |  |  |   |    |||||||    || | |    
TGATTTCTTTTCTCATTTGGAGATGCATATGAGGCAGGATCACCCACCTTTGTGTGGAAGAGACCACATGGCATATAGATCTGCCTATTTTCCTGTTAAGgtatacctagtcaatattatgttgtttgttctttctattcagttattggaaagcattatttgctatctatatgataagagcatcttccctgttatatttt

upper sequence: AT3G55200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv00s0317g00100.t01 (Vitis vinifera), 5'ss of exon 2
GGATTTCTTCTCTCATCTGGAGATGCACATGAGGCAGGAGTATCCTCCTCTCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgtaa------taaaccaaaaccc------atttgcttttcctccaaatcaaaagaagtcccttgattt----tgaatttgacactttttgcatcttgtaacag
 || ||||| |||||  |||||||||| ||||| |||||  | || ||||| || || ||||| |||||||||||||||||||| |||||||| || ||||| |      |    ||    ||      ||   |   |  | || ||    |     || | ||  |    | ||||| |   |||||   | || |     
TGACTTCTTTTCTCACTTGGAGATGCATATGAGACAGGAACACCCACCTCTGTGTGGAAGAGATCACATGGCTTACAGATCTGCTTATTTTCCTGTTAAGgtgaactctttgcttcattgtcccctcaaatgcacacatttttcacattgccaagtcaccatagacctactataaatttcattatttttctcttttctct---

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|124813106|gb|EH897972.1|EH897972
EST:     TCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAG                         GACGTGATAGATGGAGATCTGTGTG
genomic: TCTGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgtaataaacc ... cttgtaacagGACGTGATAGATGGAGATCTGTGTG
EST: gi|125310836|gb|EL324921.1|EL324921
EST:     TGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAG                         GACGTGATAGA
genomic: TGCGGGAGAGACCACATGGCTTACAGATCTGCATATTTTCCGGTCAAGgtaataaacc ... cttgtaacagGACGTGATAGA