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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattatcccaccagattttatataatagagattcctaagattctcggatgttgttccttaaattatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG

Basic information

species Arabidopsis thaliana
transcript AT1G07770.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G018228_T04 (Zea mays), 3'ss of exon 2
gtatgattatcccaccagattttatata-atagagattcctaagattctcggatgttgttccttaaattatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
    | |   ||  |   |  ||||    ||    ||| ||   |||||  || | |   ||    |||||     ||    || |    |||||||||||| ||||| ||||| || |||||||||||| |||| |||||||| || ||  |||| |||||  |||| || ||||||||||| ||||||||
----gttagccctcctcaaccttatgcccatttgaattgcttc-attct--gaggatacgcccctgattat-----tattgttctatattagGTTACATTGGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATCGTGGTGGAGCTGAATGGAAGACTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G177720_T01 (Zea mays), 3'ss of exon 1
--gtatgattatcccaccagattttatataatagagattcctaagattctcggatgttgttccttaa-attatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
       |  |  | |||  ||    | |   |  || |||    ||||   |    ||| | | |  ||| ||  ||||         || ||| |||||||| ||||| ||||| || ||||||||| |||| ||||||||||| || ||| | ||||| ||| |||||||||| || || |||||||| ||
gttagctagcactcgaccttatgccctgtttcaatgactcc----attccgaggacatgtccatgatcattgtgctgtta---------tgtagGCTACATTGGAGAGTTCGAGTACGTTGATGACCACCGATCGGGCAAGATCGTGGTCGAACTCAACGGGAGGCTGAACAAGTGCGGCGTCATCAGCCCTCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G059624_T01 (Zea mays), 3'ss of exon 1
gtatgattatcccaccagattttatataatagagattcctaagattctcggatgttgttccttaaattatgtg-gttaccaatcaaa-------tgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
|| |  |||||       |  || | |  | |  | |  |  ||  |  |||  | |||| | || |    || ||    |||           | |||| || ||  |||||||| ||||||| || ||||| ||| |||| | ||| |||||||| |||||||| ||| |||||||||||||  | ||||| || ||
gt-tagttatctttatttacattttgt--ttgcaacttgttggaagcaaggaaatagttc-tcaattctcatgagtcgtgaatgttgccctttctacagGGTATATCAGTGAGTTTTAGTATGTTGACGACCATAGAGCTGGAAGGATAGTCGTTGAGTTGAACGGCAGGCTGAACAAGTGTGGACTGATCAGTCCTCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G328578_T01 (Zea mays), 3'ss of exon 2
gtatgattatcccaccagattttatata-atagagattcctaagattctcggatgttgttccttaaattatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
    | |   ||  |   |  ||||    ||    ||| ||    |    ||||   || |||   |||||     ||    || |    ||| |||||| | ||||| ||||| || |||||||||||| |||| |||||||| || ||  |||| |||||  |||| || ||||||||||| ||||||||
----gttagccctcctcaaccttatgcccatttgaattgcttcattctgaggatac-gtccct--gattat-----tattgttctatattagGCTACATTAGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATCGTGGTGGAGCTGAATGGAAGACTGAATAAATGTGGTGTTATTAGCCCACG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G083497_T04 (Zea mays), 3'ss of exon 1
gtatgattatcccaccagattttatataatagagattcctaagattctcggatgttgttccttaaattatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
      |||   | | |  |  |     ||    |||   |  ||||   |     || |||   |||| ||| |     || |      || |||||||| ||||| ||||| || |||||||||||| |||| ||||| || || ||| ||||||| ||  | ||||| || ||||| || ||||| ||
-----gttagttctcaatctcgtgccccatttcaattggcagcattccgaggatacgtacct--gatta-gtgctatattatta------gGATACATTGGCGAGTTCGAGTACGTGGATGACCACAGAGCTGGGAAGATTGTGGTGGAACTGAACGGCAGACTAAACAAATGCGGTGTAATTAGCCCCCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S426_18V6.1 (Physcomitrella patens), 3'ss of exon 1
----gtatgattatcccaccagattttatataatagagattcctaagatt---ctcggatgttgttccttaa--attatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
     | |   | || || |       ||| | ||   ||      |  |    |      ||| |     |   || | |   |          | ||||||| ||||| |||||||||  ||| ||||||||| || |||||||||| || || ||  | || ||||| ||||||||||| ||||| ||||| || ||
ctctctctctctctctcatctacgaaaataaactatttatcttcgcgtctaagttgcagcattgatagcggatcgttttctctcttttggctcttttcagGTTATATTGGAGAGTTTGAGCTTGTTGATGACCACCGAGCTGGCAAGATTGTGGTAGAGCTCAATGGAAGATTGAACAAGTGCGGTGTCATCAGTCCTCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S41_94V6.2 (Physcomitrella patens), 3'ss of exon 2
-gtatgattatcccaccagattttatataatagagattcctaagattc-----tcggatgttgttccttaaattatgt---ggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
  | |  | ||   ||  ||   | |  || |||  |   |    |       | | || | |    ||   || |        |  |  ||   |||||| |||||||| ||||||||    || |||||||||||| | |||||||| || ||||| || ||||||||  | |||||||| || |||||||| || ||
tttgttttaatttaacttgaaactgtcgaaaagatctatgtcgagtcacacaattgaatttagagttttggtttgttcttaaccttaccttcgtttgcagGCTACATTGGCGAGTTTGAACTGGTAGATGACCACAGAGCAGGCAAGATTGTTGTTGAGTTAAACGGAAGACTTAACAAGTGCGGAGTTATCAGTCCTCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S115_101V6.1 (Physcomitrella patens), 3'ss of exon 1
--gtatgattatcccaccagattttatataatagagattcctaagattctcggatg---ttgttccttaaattatgtggt----taccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
   ||  |      ||    |  |  |    | |      | |   | ||   |||   |||  ||| |  || | |       |||  ||  | | |||| |||||||| ||||||||   ||| |||||||||||  | || || || || || ||  ||||||| |||||||||||||||||||| ||||| || ||
taatagtaagggaacatgtaacgtagtcatgttggtggatcgagcgtcctttcatgagcttgaacctgacgttcttttaaaatatacatattcatttcagGCTACATTGGAGAGTTTGAACTTGTGGATGACCACAGGGCAGGGAAAATTGTGGTGGAGCTGAACGGCAGGTTGAACAAGTGTGGTGTGATCAGTCCCCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ26253 (Selaginella moellendorffii), 3'ss of exon 1
gtatgattatcccaccagattttatataatagagattcctaagattctcggatgttgttccttaaattatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
                                       ||||||  |||    ||  |  |     | | |   | |   |      |||| ||||| || ||||||||||  ||||| || |||||||| || ||||||||||| ||  | ||||| ||| | ||||||||||| || |||||||| ||
--------------------------------------gtaagatcttcgcgaattccttttggtcgtttcttcatccttttgcgcatcagGCTACATCGGCGAGTTTGAGTGGGTCGACGATCACAGATCCGGGAAGATCGTCGTCGAGCTAAACGGCAGGCTCAACAAGTGTGGAGTCATCAGCCCGCG

upper sequence: AT1G07770.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ14550 (Selaginella moellendorffii), 3'ss of exon 1
gtatgattatcccaccagattttatataatagagattcctaagattctcggatgttgttccttaaattatgtggtta-ccaatcaaatg-cagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
                                       ||||||  |||    ||  |  ||   || | |  | | ||  ||      |||| ||||| || ||||||||||  ||||| || |||||||| || ||||||||||| ||  | ||||| ||| | ||||||||||| || |||||||| ||
--------------------------------------gtaagatcttcgcgaattcctttttgg-ttgtttcttcatcctctcgcgcatcagGCTACATCGGCGAGTTTGAGTGGGTCGACGATCACAGATCCGGGAAGATCGTCGTCGAGCTAAACGGCAGGCTCAACAAGTGTGGAGTCATCAGCCCGCG

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|116414319|gb|EG456911.1|EG456911
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|152035691|gb|BP861287.2|BP861287
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|152038400|gb|AV821952.2|AV821952
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|152038534|gb|AV827595.2|AV827595
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|116409593|gb|EG452185.1|EG452185
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|163993997|gb|ES102043.1|ES102043
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTA
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTA
EST: gi|116414320|gb|EG456912.1|EG456912
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|125073205|gb|EL137626.1|EL137626
EST:     TTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: TTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|124711691|gb|EH803093.1|EH803093
EST:     ATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: ATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|152035040|gb|BP842816.2|BP842816
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATGGTCATGCAGAAGCACG                         GTTACATGGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|125116740|gb|EL166160.1|EL166160
EST:     TATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCA
genomic: TATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCA
EST: gi|86081408|gb|DR377165.1|DR377165
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|86075131|gb|DR370888.1|DR370888
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|301502833|gb|HO208373.1|HO208373
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|152035637|gb|BP859475.2|BP859475
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|163971598|gb|ES043350.1|ES043350
EST:     TCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTA
genomic: TCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTA
EST: gi|152037866|gb|BP800725.2|BP800725
EST:     GCCTTC-TCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACGGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
EST: gi|152034265|gb|BP823552.2|BP823552
EST:     GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACG                         GTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG
genomic: GCCTTCCTCCAAAGTGATTATCAAGTTTCTGATTGTCATGCAGAAGCACGgtatgattat ... tcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctaagattctcggatgttgttccttaaattatgtggttaccaatcaaatgcagGTTACATTGGTGAGTTTGAGTATGTCGATGACCACAGATCTGGCAAGATCGTCGTTGAATTGAACGGAAGGTTGAACAAGTGTGGTGTTATCAGCCCACG
                         ttaaattatgt  TA-rich tract