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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag

Basic information

species Arabidopsis thaliana
transcript AT3G08930.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttg---atgaaattttagtat---ctctat---gttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag
||||||||   || ||||| ||  | || ||||  |||||  | ||||| ||| | |||||||||||||| ||||| | ||| || ||||||||||||||||  ||||  |    ||  | ||  | | |   ||||||    |||    | |   | ||| |    |||||      ||  | || |   | | ||     ||    |||
CCATGAAGACCCTCTGGCTCGCCGTCTACATCGCCGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCCATGTTCTACTACGAGGGCGACCAGGACAAgtaagtagtatacatatacatttccactctttcctctatcccattgcgcatctgctgctaaactctcactgaatgttgttgattggatccgtgtgttgttgcttcctgcag

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM5G871262_T02 (Zea mays), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag
|||||| |   || ||||| |   |||| ||||| |||||  | ||||| ||| | |||||||||||||||||||| | ||| || ||||||||||||||||    | ||        |    || || |||  || |    ||  |      ||    |||||||   ||||    |   ||  ||   |           
CCATGAGGACGCTCTGGCTCGTCGTTTACATCGTTGACGCCGTCCTCGTCTTCCTCGTCATCCCCTTCGCAATGTTCTACTACGAGGGCGACCAGGACAAgta---acctcacccccctcgctgtttccctaccttctcttcttccatccgtccg----ctgatga---tttggacccgccttccctgcag-----------

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag---------------------------------------------
|||||||||| || ||||| || ||||| ||| | |||||  | ||||| ||||| |||||||||||||| ||||| | ||| |||||||||||||||||||  ||   |        ||||| | | |  |   | ||||||||| | | ||   |||||||    ||||  |    | |  |  |  | |  |  || |                                              
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagtgtatgtggtgctttttaatttttaaaaaatttaagttttgtgattattagatactga----aattgatactttgtgctaatagcatggtaacaaaaaaaatactgaaattgaaaatgtgttgtgattttgggaatgtgcag

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttg-atgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgaca-atttgtgggctttttttctttcgttttttcacag
|||||||||| || ||||| ||  | || ||| | |||||  | ||||| ||||| |||||||||||||| ||||| ||||| || |||||||||||||||| ||  | ||   | |   |||   || |  || ||    ||   | |||    |  |    |||| |  ||||||   || | | |                
CCATGAAGGACCTCTGGCTCGCAGTCTACATCCTCGACGCCGTCCTCGTCTTCTTCGTCATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacgaggtttttgttattgtttgaaatttgaatcttc---gtcaagtgtttcgtgggtttgaatgaaatgtttgtgactttgtgtgcag--------------

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttg-tgggctttttttctttcgttttttcacag
|||||||||| || ||||| || ||||| ||| | |||||  | ||||| ||||| || |||||||| || ||||| | ||| |||||||||||||||||||  || |  ||  |   |  |  ||  |  ||||| |   ||||  |||  |  |||  |  | |  || |  ||   ||          |   ||   | |
CCATGAAGGACCTCTGGCTCGCAATTTACATCCTCGACGCCGTCCTCGTCTTCTTCGTTATCCCCTTTGCCATGTTCTACTACGAAGGCGACCAGGACAAgtaagt-gtatgtcgtggtgcttttaatttgatgtttttttttttttgtt--tttaatttttgtaatcatatactgaaattgaacgaaccagacgttggtccg

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag
|||||||||| || ||||| ||  | || ||| | |||||| | ||||| || || || ||||||||||| ||||| ||||| || |||||||||||||||| || || ||       ||||  | |   |  ||||   | ||  |  ||     ||    |||| |  ||||     ||| |   || ||| | |  |||
CCATGAAGGACCTCTGGCTCGCCGTCTACATCCTCGACGCTGTCCTCGTCTTTTTCGTTATCCCCTTCGCCATGTTCTTCTACGAGGGCGACCAGGACAAgtacg-agttt-------tttttcttttctttcgttggttgcttcaaaatatcaccatttgaatgaaatgttgtattggtttgtggctttgttgtgt-gcag

upper sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 5'ss of exon 1
CCATGAAGGATCTTTGGCTTGCTATTTATATCGTGGACGCTATTCTCGTGTTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagcttgatgaaattttagtatctctatgttgtaagttttgagttaatcgaatactgatgacaatttgtgggctttttttctttcgttttttcacag---
| |||| |||||| ||||| || ||||| || || || ||| | ||||| |||||||| || |||||||| ||||| | ||| |||||||||||||||||||  |||  ||   |   || || ||      || ||  | ||   | ||   |   |  |   |   ||| || | ||      ||   |     | | |    
CGATGAGGGATCTGTGGCTCGCCATTTACATTGTTGATGCTGTACTCGTATTCTTTGTTATTCCCTTCGCCATGTTCTACTACGAAGGCGACCAGGACAAgtcggtacttta--gggtttctattaatat--tgctgagatttcgtatttctccttttgttagagttgattggttg-ctgcgagactgaaggaaaataaaataaa

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|164147971|gb|ES120429.1|ES120429
EST:     TTCTTTGTTATCCCCTTCGCAATG-TTTTCTATGAAGGCGACCAGGACAA                         GACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT
genomic: TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagct ... tttttcacagGACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT
EST: gi|116451406|gb|EG493998.1|EG493998
EST:     TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAA                         GACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGTAGTTACCACGGC
genomic: TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagct ... tttttcacagGACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGTAGTTACCACGGC
EST: gi|164098201|gb|ES185617.1|ES185617
EST:     TTCTTTGTTATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAA                         GACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT
genomic: TTCTTTGTCATCCCCTTCGCAATGTTTTTCTATGAAGGCGACCAGGACAAgttcgtagct ... tttttcacagGACTCTTGGAAAGAGGATAAAAAGTGCCTTAATTTGGGT