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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatctaaatcctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatcttgtactgtgtttaactttcttctatgtag

Basic information

species Arabidopsis thaliana
transcript AT5G18230.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os03g44900.2 (Oryza sativa), 5'ss of exon 5
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctg-ctatatctaaatc---ctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatctt-gtactgtgtttaactttcttctatgtag
 |||||    || || || ||| |||| |||||||| || ||||| || ||||| ||||| || |||||||| |||||||| ||||||||||| || ||||| || || |||    ||     ||    | | |  | ||  | | ||   |     |        | || ||| |  |||||| |  ||||  | || || | |           
ATTGGAGTCAATATTAAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTTAATGATGTGAAAGATTTCCTGGATGACTATGTTGAACGTAACCAGgtgtggctgtattcctatttatttgtgtcaatattttcatccgatttagtttattgctatgttcgcagaacacattcttattatgtcagtacgttattcaaatctag---------

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G340749_T01 (Zea mays), 5'ss of exon 4
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatctaaatcctggaatattttgct-tatgtgttataccctgggtt-tcgaacattaaaatacacttatattatcttgtactgtgtttaactttcttctat-gtag-----------------------------------------------------------------------------
 |||||    |||||||| ||| |||| |||||||| || ||||| || ||||| ||||| || ||||||||||| ||||||||||||||||| |||||||| ||   |  ||  ||  | ||   |  | || |   |   | | | | |||  || || || |      | ||  |       |        ||| | || |||||| || |                                                                             
ATTGGAGTCAATCTTGAGACTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTCAATGATGTTAAAGATTTTCTTGATGATTATGTTGAACGTAATCAGgtatgtc-tgccttcatagttgaccctcatactctgcatcccaaatcataggtcgtccaaaatgacctctaatttggaacggggagggggagtattatcctttttctattgttgaatgctaattgtgataacgtacagacatatgatcggccttttatttgttattttttgtttttttcgctcatgtttag

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: AC197122.3_FGT003 (Zea mays), 5'ss of exon 7
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatctaaatcctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatcttgtactgtgtttaactttcttctatgtag-------------------------------------------------------------------------------
 |||||    |||||| ||||| |||| |||||||| || ||||| || ||||| ||||| || ||||||||||| ||||| ||||||||||| |||||||| ||       |      ||    ||  |   |   |  |  |   | ||||    | | | | ||  | ||     | |  | |  |    || | || || | | | |                                                                               
ATTGGAGTCAATCTTGCGGCTTTTGGATAATGATGAGTTGAGTCCTGAGCAAGTCAATGATGTTAAAGATTTTCTTGATGACTATGTTGAACGTAATCAGgtatgtctgccttcgtagttgactcatgctctctccatcctgaattataggttatccaaaatgacatctaatttgg--aacggggagggataatatcctttttttgtattgttgactgctaattgtgataacatacaggcatatgatcgaccttttatttgttattttcgttttcttcattcatatttag

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G26850.1 (Glycine max), 5'ss of exon 6
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgc----tatatctaaatcctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacac---ttatattatcttgt-----actgtgtttaactttc-ttctatgtag--------------------------------------------------------
 |  ||| | ||||||||||| || || ||||||||| |||||||||| || || ||||| ||||||||||| |||||||| ||||| || || |||||||| ||     |||| ||    |       ||||||||| |     |||        |   | |    ||||  ||   || | |  || | |     |  || ||  | |||  | | ||| |                                                         
ATGTGAATTTATCTTGAGGCTACTAGATAATGATGAACTAAGTCCAGAGCAGGTTAATGATGTCAAAGATTTCCTGGATGACTATGTAGACCGTAATCAGgtttgtcttttatagcttgcactcttgccattttgcttttaaaaaataa---aaactatcaccgaggaaatttaccctttgtgtagtcctttcaaagaaagtcttagagtttgataccatgcaaaaattatgaattggtattaattttctgtctttcctatttttcattttattttacag

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G04690.2 (Glycine max), 5'ss of exon 6
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatctaaatcctggaatattttgcttatgtg-ttatac-cctgggt---ttcgaacattaaaatacacttatattatcttgtactgtgtttaactttcttctatgtag
 |  ||| | || |||||||| || || ||||||||||||||||| ||  | || ||||| |||||||||||  ||||||| |||||||| || |||||||| ||   | |  |||||       ||| ||||||     ||  || |||| ||   |    |  ||  |  ||   | |||    | | |  |||   |||     |        
ATGTGAATTCATTTTGAGGCTACTAGATAATGATGAATTAAGTCCTGAGGAGGTTAATGATGTCAAAGATTTCTTGGATGACTATGTTGAGCGTAATCAGgtttgtcttttagaaatc-------attctgcttaaaaaattggacacctgagtaaatgttgatgtttcag-acctatgtatagcatggaagagtgagaaacaaaaat--------

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G07830.1 (Glycine max), 5'ss of exon 6
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatcta------aatcctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatcttgt---actgtgttt---aactttcttctatgtag--------------------------------------------------------
 |  ||| | ||||||||||| || || ||||||||| ||||||||||  | || ||||| ||||| ||||| |||||||| ||||| || || |||||||| ||   | | ||      | || ||  || |||   |||     || || ||      |||  | |   |  |  || |||| || | |   |  | || |   |  ||  | | ||| |                                                         
ATGTGAATTTATCTTGAGGCTACTAGATAATGATGAACTAAGTCCAGAGGAGGTTAATGATGTCAAGGATTTCCTGGATGACTATGTAGACCGTAATCAGgtttggcttgtatagcttgcactcttgccatttttcttttaaaaaataaacactat-caccgagtaattttaccc-tttgtattgtcctttcaaagagagtcttagagtttgataccatgcaaaatttatgaattggtattaattttctgtctttcgtatctttcattttattttacag

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0007g07570.t01 (Vitis vinifera), 5'ss of exon 6
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatctaaatcctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatcttgtactgtgtttaactttcttctatgtag
||| |||||||| |||||||| ||||| ||||||||||| ||||| || || || ||||| || ||||| ||  ||||||||||||| ||||| |||||||| |    |     ||   |    |  |||  |||| |    |  | | |  | | |   ||| |    || |||||||    ||||  ||  |   || |          
GTTAGAACTGATTTTGAGGCTACTGGATAATGATGAATTGAGTCCTGAGCAGGTCAATGATGTAAAAGACTTCTTGGATGATTATGTGGAACGTAATCAGgtttaagttgctcgaactttaattttgtttctttattttccttgacatagcctgccacttttagatgcaacatatattaaga-gtac-atgcatgcattgcc---------

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ20408 (Selaginella moellendorffii), 5'ss of exon 6
GTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAGTAAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctatatctaaatcctggaatattttgcttatgtgttataccctgggtttcgaacattaaaatacacttatattatcttgtactgtgtttaactttcttctatgtag
  | ||||| || ||| | ||| |||||||||| ||  |||| ||||| ||||||||||||||||||||  || |||| |||||  | ||| | ||||||||   || |   |             | | | |  ||  ||  | ||||  |   |  |  || |                                              
ACTAGAACTCATTTTGCGACTTTTGGACAATGACGAGCTAAGCCCAGAGCAAGTAAATGACGTCAAAGAGCTTGTGGAAGATTACCTCGAAAGGAATCAGgtg-actttgctt-------------tctcgttgttgccttgaaacctgaatggtggccgctacag---------------------------------------------

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|125044016|gb|EL116285.1|EL116285
EST:     TTGAACGAAATCAG                         GATGATTTTGATGAATTCAGTGATGTCGATGAGCTCTATAGCACGTTGCCA
genomic: TTGAACGAAATCAGgtctgctata ... ttctatgtagGATGATTTTGATGAATTCAGTGATGTCGATGAGCTCTATAGCACGTTGCCA
EST: gi|125225035|gb|EL239120.1|EL239120
EST:     AAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAG                         GATGATTTTGATGAATTCAGTGATGTCGATGAGCT
genomic: AAATGACGTCAAAGATTTTCTGGATGATTATGTTGAACGAAATCAGgtctgctata ... ttctatgtagGATGATTTTGATGAATTCAGTGATGTCGATGAGCT
EST: gi|124777198|gb|EH867141.1|EH867141
EST:     AAATGACGTCAAAGATTTTCTGGATGATTTATGTTGAACGAAATCAG                         GATGATTTTGATGAATTCAGTGATGTCGATGAGCT
genomic: AAATGACGTCAAAGATTTTCTGGATGA-TTATGTTGAACGAAATCAGgtctgctata ... ttctatgtagGATGATTTTGATGAATTCAGTGATGTCGATGAGCT