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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G77610.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os08g01410.1 (Oryza sativa), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
 |  ||||  || |     |   || || |  |  | ||||| || || |||||||| ||||| || ||||||||||||||||||||||||||||| |||||| |   |   || ||   ||  |    ||| |||              |||       |    |||||  |||   ||| ||   ||    |||  |||| |   |  ||||                                       
CAAGATGGGAGACGTTGCCACCATCCGAGCCGTTCTGGCGATCCTCCAATGGTGGGGCTTCAACGTCACCGTCATCATCATGAACAAATGGATCTTCCAGgttccaattcttccataatcttcctctccttttctt--------------cccccccccccccccctattcttcttccgttacttcctt----tttcttttctgtccttgagatgatc-----------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os04g59550.1 (Oryza sativa), 5'ss of exon 2
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
 | |   |  |      | |   |  |  | ||  | || || || ||||||||||| ||||| || |||||||||||||| ||||| |||||||| |||||      ||   |||     |    || |        ||   |    |  |  |  |||   |  |     |||    |     ||   | || |  |  ||                                                  
CACCGGCGGTGGGCTGGGCAACCTGCGCGCGCTGCTGGCCATCCTCCAGTGGTGGGGCTTCAACGTCACCGTCATCATCATCAACAAGTGGATCTTCCAGgtccagattt---cctctctctccctggatccctccccttccttcctttctctctccgattcaagattccattctcccctcttcaat---ggatatcctgccaaac-----------------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G127591_T03 (Zea mays), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
      ||  |      | |   |  |  |  |  | || || || ||||||||||| ||||| || |||||||||||||||||||| |||||||| |||||||      | ||  |  || ||   | ||  |  |    | ||     | |    ||||||       |||  | |  | |||    |    |   ||||  ||||  |   |     |||| |  |   |  |  ||    || | |   
GGCGCCGGCCGGCCTGGGCACCCTGCGCGCGGTGCTCGCCATCCTCCAGTGGTGGGGCTTCAACGTCACCGTCATCATCATGAACAAGTGGATCTTCCAGgttt------acccgcattatattctagcttc-cccatccatcttc----cgccgcggatctggatgtcagat--gcttctcctgcccggctgctacttttctcctttggaatatctaactaaattcgtccatactgcttaccattatag---

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G127591_T01 (Zea mays), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
      ||  |      | |   |  |  |  |  | || || || ||||||||||| ||||| || |||||||||||||||||||| |||||||| |||||||      | ||  |  || ||   | ||  |  |    | ||     | |    ||||||       |||  | |  | |||    |    |   ||||  ||||  |                                          
GGCGCCGGCCGGCCTGGGCACCCTGCGCGCGGTGCTCGCCATCCTCCAGTGGTGGGGCTTCAACGTCACCGTCATCATCATGAACAAGTGGATCTTCCAGgttt------acccgcattatattctagcttc-cccatccatcttc----cgccgcggatctggatgtcagat--gcttctcctgcccggctgctacttttctcctttggaat----------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G040033_T01 (Zea mays), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
 |  |||| | | ||    |   || |  |  |  | || || || ||||||||||| ||||| || |||||||||||||| ||||| |||||||| |||||  | ||     ||| |   ||   | | ||  |||| |     |  |    ||||| |   ||  | |   | ||  | ||    |  | | ||   |  |  ||                                              
CAAGATGGGGAACGGCGCCACCATCCGCGCGGTGCTCGCCATCCTCCAGTGGTGGGGATTCAACGTCACCGTCATCATCATCAACAAGTGGATCTTCCAGgtcccgtc-----cctcgcgctt---gctcttgtttaaatcctggtcttctttttttgtttcaattcaatttccagagatggccatgtatgtagttatatatatattc---------------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA14G23570.1 (Glycine max), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
  | ||     |  | ||  |||| |||||||| || || || ||||||||||||| ||||||||| || ||||| ||||| ||||| |||||||| |||||||||   |  | || |   |||     |||||  |||| |  |||  |   |  | ||   ||  |    | |  | |||||  |||  |||    |  ||  |                                               
GGTTATTTGCCAGTGGAGCGTGTTTAGATCTCTCTTGGCTATCCTTCAGTGGTGGGCTTTCAATGTCACTGTCATTATCATCAACAAGTGGATCTTCCAGgtttctctctctctctcgttatttc----tttacccaattcttgttataattataataatt--attcacactttttttattgcttctttcaaatcccttcacaatt-----------------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA06G11850.1 (Glycine max), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttg-ctgatttg-gaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
  || |     |  | ||  |  |||||||||| ||  | || |||||||||||||  |||||||| |||||||||||| | ||||| |||||||| |||||| ||  ||   | |     || |     |        | | || |||  |    | |||  | | |||   ||  ||||  || ||| | ||  || |||                                                     
CTTCGTTTTCCAGTGGAGCGTCATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCGTTCAATGTCACCGTCATCATCGTCAACAAGTGGATCTTCCAGgttcctgttttctctttctccttctcctcctcctccttctattttcaatttcgaaataatc--accaattcgccttttgttttctaattcgcgagatttgtt-----------------------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G42900.2 (Glycine max), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
  || |     |  | ||  |  |||||||||| ||  | || |||||||||||||  |||||||| || ||||||||| | ||||| ||||||||||||||| || ||    |||    || ||    | |  | ||||      || || |      ||   |||  |  ||||||  |   |||||    | || || |                                                   
CTTCGTTTTCCAGTGGAGCGTTATCAGATCTCTCTTGTCCATCCTTCAGTGGTGGGCCTTCAATGTCACTGTCATCATCGTCAACAAGTGGATCTTTCAGgttcctgctatctccttc--ttcttcatctattttcaatttc--caaacactcaccaattcgcttcttgtcttctgattctcgagattttttttctgtttacgt-------------------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv18s0001g02970.t01 (Vitis vinifera), 5'ss of exon 1
AATCATGGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgttt-cttcttaaccctagaatttttaggttttacttaattgtatttaatacccttttgatctgatcta-ttgatctgatgttg--ctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
  |  |     |  | ||   ||| ||||||||  | || || ||||| |||||||| |||||||| ||||| || ||||||||||| |||||||||||||||| |||  |     |   ||| | |  |    | |  ||    ||  |  |   | ||| | || |  || || |  | ||   ||| ||  | || ||                                                        
TCTTCTTTGCCAGTGGAGCGCGTTTAGATCTCTGCTTGCCATCCTTCAATGGTGGGGGTTCAATGTCACCGTGATTATCATGAACAAGTGGATCTTTCAGgtttgctttctgcttttcagattctcaaatcccccctctttcggcttt-tgtcgaatggatttcatttccttaattttgttttattctgtttctggatgtg--------------------------------------------------------

upper sequence: AT1G77610.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S6_175V6.1 (Physcomitrella patens), 5'ss of exon 2
AATCAT-GGAGGAAGGAAGTATGTTCAGATCTCTATTAGCGATTCTTCAGTGGTGGGGTTTCAATGTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttctta-accctaga-atttttaggttttacttaattgtatt--taatacccttttgatctgatctattgatctgatgttgctgatttggaatttggtttcagctttatagattggtgataaagttttgatttttttttgttgttgttgcag
 |||   ||  |     | |   ||| ||    |  | ||||| || ||||||||| ||||||||||    ||||||||||||||||||||||| || ||||||  |   |     ||| | |  | |   ||||| || ||| |||   |   ||   | |    ||    |||    |||   |     |   ||  |                                                          
-ATCGCCGGTTGGCATCACTCAATTCCGAGGAATTGTGGCGATCCTGCAGTGGTGGAGTTTCAATGTGCTGGTCATCATCATGAACAAATGGATTTTCCAGgttcttgactgtgttctacatacgtatgccttttattttattatataggtgtcacagatctcgaatgggtaatttccttgactatatccttcatgagctc---------------------------------------------------------

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|164165152|gb|ES049875.1|ES049875
EST:     AAATGGATCTTTCAG                         AAACTGGATTTTAAGTTTCCACTATCGGTTTCATGTGTTCACTTCATATGT
genomic: AAATGGATCTTTCAGgtttcttctt ... gttgttgcagAAACTGGATTTTAAGTTTCCACTATCGGTTTCATGTGTTCACTTCATATGT
EST: gi|163985698|gb|EL971466.1|EL971466
EST:     GTTACCGTCATCATCATGAACAAATGGATCTTTCAG                         AAACTGGATTTTAAGT
genomic: GTTACCGTCATCATCATGAACAAATGGATCTTTCAGgtttcttctt ... gttgttgcagAAACTGGATTTTAAGT