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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttgatcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag

Basic information

species Arabidopsis thaliana
transcript AT4G26430.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os08g39070.1 (Oryza sativa), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttgatcttagaatatttctat-gtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
||||||||||||| || |||||||| ||||||||||||||||| ||||||||  || | ||  |  | ||  || ||||  | |||||||||||||| || ||| |          || | |  |||||   ||| |||     |   ||   ||  ||     |  |  | | ||||| | |      | || || |    | | |  || |  ||     ||  |  || | |                                                 
TGGCTGCTCATCTGACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAATATCTTGTTTCCATGCAGAAAGgtat-tttttgtt---------gctgttgagccctcaa-aatatgtctgcta---ttcgatgtgcttgaaatatagttcaaaatatgtttgccacctgttacttcaaataggtatcaactgtaaatcccttt-accatcactgcag---------------------------------------------

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G080652_T01 (Zea mays), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgc-tcaagt-ccccact-ctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttgat-----cttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
|||||||||||||||| |||||||| ||||||||||||||||| ||||||||  || | ||  |  | ||| || | || || ||||| ||||||   |   |   | |||| || || | ||   |  |||   | |  | |||| || |||| ||| | |||      |      |||  | | ||  |      |||   ||   || ||    ||   || ||   |   |||  | ||||| |  ||| | | |      || | ||| | |    |||||     
TGGCTGCTCATCTTACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAGTATCTCGTTGCCATGCAAAAAGgtccgtaaatatatgaagtgccacattgcttcatatctcgctactgagataat-aatctttcgtg-cttgttatccaaaacatgcttccattcttctttaaacctttagaactttgatgatttcatgttaatggccctgttaga--actttga-cttgagaagtttaactgcaaagccttttcttcaactgcag----

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G028089_T01 (Zea mays), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctctt----------caatttgttaatcaagcttttgtgacctgtcccttgatcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagat------gattttgagc--aagagtaatgtggtactaatgacttatgtgattctgcatctag
|||||||||||||||| |||||||| ||||||||||||||||| ||||||||  || | ||  |  | ||| || |||| || ||||| ||||||   | | |     |    | ||  |   | |   ||             | | ||   | |||||||   || || |  |   || |     || | ||    |   |||   |      ||      |||   |||||   |        ||||||   |   |||  | ||  || | || | ||| |||    |||||     
TGGCTGCTCATCTTACAGGAATACACAGTGCCATCAAGATGCTCAATAGCAGGGTCCGTGTTATCCATCAGTATCTTGTTGCCATGCAAAAAGgtccgtacatatatgaagtgctacatttttttctctttactgaaataatgctatattgtgctagcttttcaaacatg-ctttcattcatgattcatctttaaacctaaacctttagaactctaatttcccaaact-tgttaatggccctgttggatttttgccttgagaaaactgcagtgcaaa-gccttttgtt-cactgcag----

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttga-tcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
|||||||||| |||||||||||||| ||||||||||| |||||| |||||||||| |  |||||| | ||  || || | || ||||| ||||||||    ||   |   |  |  |      |  |  || ||  |   |    |  | || | |    ||     | ||||| || |  | |   | ||||  ||                                                                                       
TGGCTGCTCACCTTACTGGAATACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACATCACTATCTTCTTGCAATGCAAAAAGgtatgaggttatcc---tttctgcaaa-aatagcatttgaaaataaaatattatttgttattagaaatcttccaagtcttataaaaaatattattcttttgata---------------------------------------------------------------------------------------

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtat-----attcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttgatcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
|||||||||| |||||||| | ||| ||||||||||| |||||| |||||||||| |  |||||| ||||  || || | || ||||| ||||||||     |||  |||  || |  |   |  |  |      | | ||||||| |  |  | || |||        ||  ||||   || | || ||   ||                                                                                             
TGGCTGCTCACCTTACTGGTACACACAGTGCCATCAAAATGCTTCATAGCAGAATAAAGGTGCTACACCACTATCTTCTTGCAATGCAAAAAGgtatgtatcatttctgcaaaaatagcatttgacaataagaaatta-tttgttattagaaatcttttga---aaatattattcttttgatctgtcaattccttaa-------------------------------------------------------------------------------------------

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttgatcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
||||||| || || || || ||||||||||||||||||||||| |||||||||||| | || ||  | ||  || |  | |||||||| |||||| |||   |  |    |    | |           || ||||||||   |||  |  ||  |          ||   ||| || ||||| |  |       ||   || ||||||| |||                                                                     
TGGCTGCCCACCTCACGGGGATACATAGTGCCATCAAGATGCTAAATAGCAGAATCCGTGTTCTTCATCATTATCTGCTTGCTATGCAAAAAGgtgtatgtcttttt---tgtttatttagaaat----ttgaatttgtt---caaagtagtggaaga--------gaggataggat-tttctctaagaaaa--aacatagaggaaagaactaa---------------------------------------------------------------------

upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S34_439V6.1 (Physcomitrella patens), 5'ss of exon 6
TGGCTGCTCATCTTACTGGAATACATAGTGCCATCAAGATGCTTAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattcttgctcaagtccccactctcggtccctcttcaatttgttaatcaagcttttgtgacctgtcccttgatcttagaatatttctatgtgttttcctacggggaagaaagaattaaaagggtgttagaagatgattttgagcaagagtaatgtggtactaatgacttatgtgattctgcatctag
| ||||||||| | || || || ||||||||||| ||||||||||||||||| ||  ||||  |||| || ||  |||   |||| ||||||||||   |   ||     ||  ||  |||     || |     | ||   ||   ||||||||        | | ||   ||  | |  ||    | |    ||  |         |    |    || |||  || || || ||| ||                                          
TTGCTGCTCATTTGACCGGGATGCATAGTGCCATAAAGATGCTTAATAGCAGGATTCGAGTTTTATATCACCACCTTGCTTCTATTCAGAAAGgtacgct---gcaaggatcttcatcctcttattctgtgatgatcgtatttc---cttttgtggttaa---cgtaataggaggttgtagcttaagggtgg--tagtgatgtcttctatcgtacctcgttttatgaggtgtttctgaacag-----------------------------------------

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|116443196|gb|EG485788.1|EG485788
EST:     TAATAGTAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAG                         GTGATAAACCTTGTGAGAACTCAGTTCTGAGACAAGTATCTAGTCTGCTCA
genomic: TAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattctt ... ctgcatctagGTGATAAACCTTGTGAGAACTCAGTTCTGAGACAAGTATCTAGTCTGCTCA
EST: gi|86080018|gb|DR375775.1|DR375775
EST:     TAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAG                         GTGATAAACCTTGTGAGAACTCAGTTCTGAGACAAGTATCTAGTCTGCTCA
genomic: TAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattctt ... ctgcatctagGTGATAAACCTTGTGAGAACTCAGTTCTGAGACAAGTATCTAGTCTGCTCA
EST: gi|125243495|gb|EL257580.1|EL257580
EST:     CTATACCAGCATATTGTCGCTATGCAGAAAG                         GTGATAAACCTTGTGAGAACTCAGTT
genomic: CTATACCAGCATATTGTCGCTATGCAGAAAGgtatattctt ... ctgcatctagGTGATAAACCTTGTGAGAACTCAGTT
EST: gi|116443197|gb|EG485789.1|EG485789
EST:     TAATAGTAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAG                         GTGATAAACCTTGTGAGAACTCAGTTCTGAGACAAGTATCTAGTCTGCTCA
genomic: TAATAGCAGAATCAGAGTGCTATACCAGCATATTGTCGCTATGCAGAAAGgtatattctt ... ctgcatctagGTGATAAACCTTGTGAGAACTCAGTTCTGAGACAAGTATCTAGTCTGCTCA