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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactcttcatatgattcatatactagtgattgattaatgatttttgttattgataaatgtcttgtgtgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA

Basic information

species Arabidopsis thaliana
transcript AT1G72370.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 2
gtaaactcttcatatgattcata---tactagtgatt-gattaatgatttttgt-tattgataaa--tgtcttgtgtg-tgt-tgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
||||  | |   |||| || ||    |  | || ||| |||     | ||  ||  | |   ||   || ||  |||  ||| | ||||| || |||||   |||  | ||||||||||| | |||||| ||||||||||| |||||||||||| | | |||||| |||||||| || || |||||||
gtaagatttcagtatgtttgattgtttcttggtaatttgatctgccaattgagtgcactctcaagcctgcctgttgtaatgtgtacagCCAATTAAGGAGTCTGCACTTGGAAACATTCCTACCATTGCCTTCTGTGACACTGACTCTCCAATGCGCTATGTTGATATTGGTATTCCTGCTAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 2
--gtaaac--tcttcatatgat--tcatatactagtgattgattaatgatttttgttattgataa--atgtcttgtgt-gtgt-tgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
  | |||   ||  ||| | |   |  |    | |||| |     |   | ||  ||| ||||     | || ||  |  ||| ||||||| ||||||||   |||| |||||||||| || | |||||| ||||||||||| || || |||||| | | ||| || || || ||||| ||||||||||
gtgaaaatgatcaccatgtcacggtagtgcgttggtgaattgggtacagtattgtttactgatcgtgttatcctgaattatgtctgcagCCAATCAAGGAGTCTGCTCTGGGAAACATCCCGACCATTGCCTTCTGTGACACCGATTCCCCAATGCGGTATGTCGATATCGGCATCCCGGCCAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G145308_T01 (Zea mays), 3'ss of exon 2
------------------gtaaactcttcatatgattcatatact-agtgattgattaatgatttttgtta-ttgataaatgtcttgtgtgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                    ||| |  | |    ||  ||  | | ||||  || |  ||  |  | || |  | |||  | |      |   |||||||| ||||||||   |||| |||| ||||| || | |||||||||||| ||||| |||||||| ||| | | |||||| || || ||||||||||||||||
gtgaagagaagttttgtttcaaagttcttaagaaatatatgcattgagtgggtgctgcattgtgatggtgaactaatagttatgcgtaattgtttgcagCCAATCAAGGAGTCTGCTCTGGGGAACATCCCGACCATTGCTTTCTGCGACACTGACTCTCCCATGCGGTATGTTGATATCGGCATCCCAGCCAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G092719_T01 (Zea mays), 3'ss of exon 2
------gtaaactc---ttcatatgattcatatact-agtgattgattaatgatttttgttattga--taaatgtcttgtgtgtg-----ttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
       ||   ||   |||| |    | |  |||| | ||| ||     ||   | || |  |||  ||| |||  ||   ||      |||||||| ||||||||   |||| |||| ||||| |||| |||||| ||||||||||| |||||||| ||| | |  || || || || |||||||| |||||||
gtgacaatagtttcagtttcaaagttctgaagtacttactgagtggaccctgcagtgtgatggtgaactaattgttatgctggtaatcgtttgcagCCAATCAAGGAGTCTGCTCTGGGGAACATCCCAACCATTGCCTTCTGTGACACTGACTCTCCCATGCGGTACGTCGATATCGGCATCCCAGCGAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G099657_T01 (Zea mays), 3'ss of exon 2
-----gtaaactcttcatatgattcatatactagtgattgattaatgatttt-tgttattga-taaatgtcttgtgtg--tgtt-gcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
     |  || |  |  |   |      ||| |   ||| || |||| |    ||| || || ||| |||  || ||   |||| |||||| ||||||||   |||| |||| ||||| || | |||||| ||||| ||||| |||||||| ||| | | ||| || || || ||||||||||||||||
gtgaagggaatttctgttccaaagttcttacgaaatatttatgaatgctgcagtgtgatggactaattgtagtgcgtaactgtttgcagCCAATCAAGGAGTCTGCTCTGGGGAACATCCCGACCATTGCCTTCTGCGACACTGACTCTCCCATGCGGTATGTCGATATCGGCATCCCAGCCAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------------------gtaaactcttcatatgattcatatactagtgattgattaatgatttttgttattg-------ataaat-gtcttgtgtg--------tgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                                                                                         ||  |   ||  | |||    | |   ||| | ||||      |||||||   ||       || | | | ||| |||         |  ||||||||||||||||||||||| | ||||| |||||||  |||||||| |||||||| || ||||||||| | | ||||||  | || ||||| ||||| || |
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G01460.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------gtaaactcttcatatgattcatatactagtgat--tgattaatgatttttgttattgataaatgt-cttgtgtgtgt---tgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                                                                         |  |   |   |||| |   |    | ||  |  || | | ||  || |||| || ||   |||  ||||  || |   |||||||||| ||||||| |||| | || || ||||| | |||||||||||||||||| || || || ||||| | ||| |||||||| || || ||||||||||
gtggatacccaaatcagcttcaaatgatatatttgattttagttacttgtgctttgattgattgttgacatgatttatgttatgtatgttgtttgcggttgttgtggtgttgactgtgttgtgttgttaatgtgtgtgtttgttcgtttgtgtgcagCCTATTAAGGAAGCTGCTCTTGGGAATATTCCCACCATTGCTTTCTGTGACACTGATTCGCCTATGAGGTATGTGGACATTGGAATTCCTGCCAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G42150.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------------------gtaaactcttcatatgattcatatactagtgattga--ttaatgatttttgt---tattgataaa---tgtcttgtgtg-------tgt-tgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                                                                                         ||  | | ||  | |||    | |   ||| ||| |  ||  |  ||| |||   | |||  | |   |||||| |||        ||| |||||||||||||||| |||||| | ||||| |||||||  |||||||| || ||||| || ||||||||| | | ||||||  |||| || || ||||| || |
gttattacccctttagaagttagaaccagagagtatttaaggtgttttcaggagttatatagttcaactcttcaccgtcaaggatgtttgttgagtgttggtttgaaatttgtgacagtaattaaccttgttattttgtgtctgtcttgccacaatttgtcttatgttattgatttgtgtgcagCCTATCAAGGAGGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGCGACACTGATTCTCCAATGCGGTATGTTGATGTTGGGATTCCTGCCAATAATA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G04890.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------gtaaactcttcatatgattcata-tactagtgattgattaatgat---------------ttttgttattgataaatgtct-tgtgtgtgt-tgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                                                                          |  | | || || |  || ||  |   | || ||| |||  | |               || |||| || ||  |||| | |  || ||| |||||||||| ||||||| |||| | || || ||||| | |||||||||||||||||| || || || ||||| |  || |||||||| || || ||||||||||
gttagtaccctattttcatatgcagttatatgaagaaaaaaagatacatttgattctagtcacatgtggtttgattgattgttgatgtagtttatggtgtgattgtttgtttagggttgttgtattgcccgtgttgtgttgttaatgtatgtttgttggtttgtgtgcagCCTATTAAGGAAGCTGCTCTTGGGAATATTCCCACCATTGCTTTCTGTGACACCGATTCACCTATGAGGTACGTGGACATTGGAATTCCTGCCAACAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 3'ss of exon 2
-------------gtaaact--cttcatatgattcatatactagtg--attgattaatgattt-----ttgttattgataaatgtcttgtgtgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
              |||  |  |||  |||  |  ||    | |||  ||   ||| | | |      || ||| | || |      |   ||| || |||||||| ||||||| |||  | |||||||||||||  ||||||||||||||||| || || |||||| | | |||||||||||||||||||||||| ||||
tattttggttcatctaatttatctttgtatagtgtatgagtttgtgttatgagttatttagtccaggatttttacttatcatcacaataactgt-tttcagCCTATTAAGGAAGCTGCACTAGGAAACATTCCAACTATTGCTTTCTGTGACACTGATTCCCCAATGCGGTATGTTGACATTGGTATCCCAGCCAATAACA

upper sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S59_133V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------gtaaact-cttcatatgattcatatactagtgattgattaatgatttttgttattgataaat-gtcttgtgtgtgtt---gcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                  | |||    ||  |     | | |   |   || ||  ||   |||| ||  |  | |   | || | ||||  | |     |||| |||| ||| | |||| |||||||||||||  |||| || ||||||||||| |||||||| ||||  |  || ||||||| |||||| || |||||||
gagaatggccaaggaatggcaaaggattttgtggagattaaagtatgcagactg--tatgaatttctgaaacgggtggtttgtgtggtgttcgattggaaagCCAATCATGGAGGCTGCTCTGGGAAACATTCCCGTCATCGCATTCTGTGACACGGACTCTCCGATGAAGTACGTGGACATTGCTATCCCTGCGAACAACA

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|164118810|gb|ES037484.1|ES037484
EST:     GAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: GAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|116467170|gb|EG509762.1|EG509762
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|164230555|gb|ES068878.1|ES068878
EST:     ACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGG-AACATTCCAATCATTGCTTTCTGTGAC
genomic: ACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|116423188|gb|EG465780.1|EG465780
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|164028003|gb|ES181151.1|ES181151
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACA
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACA
EST: gi|125149326|gb|EL182545.1|EL182545
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGG
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGG
EST: gi|301501781|gb|HO207321.1|HO207321
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|164199635|gb|ES181304.1|ES181304
EST:     GACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: GACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|125192039|gb|EL206993.1|EL206993
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCT
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCT
EST: gi|116470236|gb|EG512828.1|EG512828
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|124917032|gb|EH990906.1|EH990906
EST:     AACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: AACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|125275690|gb|EL289775.1|EL289775
EST:     CTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: CTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|124999382|gb|EL071651.1|EL071651
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTCTGGGAAACATTCCAATCATTGCTTTCT
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCT
EST: gi|164216655|gb|ES088221.1|ES088221
EST:     CAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: CAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|164128782|gb|EL975371.1|EL975371
EST:     GAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: GAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|164072395|gb|ES080933.1|ES080933
EST:     AGTGAACCAAGGCTGTTGTATTTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTC
genomic: AGTGAACCAAGGCTGTTG-A-TTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTC
EST: gi|116470237|gb|EG512829.1|EG512829
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|47830956|gb|CK120640.1|CK120640
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGAC
EST: gi|164172062|gb|ES134641.1|ES134641
EST:     TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAG                         CCTATCAAGGAAGGTGCTTTGGG
genomic: TCAGTGAACCAAGGCTGTTGATTCTTACTGACCCAAGAACTGACCACCAGgtaaactctt ... tgtgttgcagCCTATCAAGGAAGGTGCTTTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actagtgattgattaatgatttttgttattgataaatgtcttgtgtgtgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA
                          tattgat  putative branch site (score: 3)
       attgattaatgatttt  TA-rich tract