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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT

Basic information

species Arabidopsis thaliana
transcript AT4G31700.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os03g27260.1 (Oryza sativa), 3'ss of exon 4
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
        | ||  |     | |||||| ||       |||  |  ||||   ||||  || |   ||||| |  |||  ||   |  | |||  || ||     ||||| || || |||||| | ||| |||| ||| |   ||||||| | ||||| ||||| || |||||||||||||| ||||  |||||||||||| | ||| |
------gtagatgtttaagatgcttacatttgaatggttatgtttcattttgctttgc-tg-gcaggtgttctaatgtgaatgttccat-ttttatactg-----acagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGAAGTCAGTCCGTGGTTGCATTGTCAGCCAAGATCTCTCTGTTATCAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G45770.1 (Glycine max), 3'ss of exon 4
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgttt---cgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
           || ||  ||||  ||   |  ||||| | |  |    |    |  || |   | |   |||  ||  | | |||  || |||     |  |   ||||||||||||||||||||| | ||| |||||||| | | ||| ||| | || ||||||||||||||||| |||||||| ||||| || ||||||||| ||||| |
----------ttattaatttttaatagtgtaatgcatttgttgttatatcaggt--gtctacattttcttttgtctacaaactaattttctttttatttgttacttgaacagGAACTCCTTGCTTCCGTGGATATGGAAGGCGTAATGGAGAGCGTAGGAGAAAGTCTGTTCGTGGGTGCATTGTCAGCCCAGACCTCTCTGTTTTGAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G31840.3 (Glycine max), 3'ss of exon 3
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
     |  |   |||   ||||         | | | |  |         | |||        ||| | |||         ||||  || ||| | | |   ||| ||||||||||||| ||| | ||| |||||||| | | ||| ||| | ||||| ||||||||||||||||||||||| || || |||||||||||| |||||||
-----tttatgcaatgatttttagctttaactagaaaccttttcattgcaggattctcagccatgtttatttgcagacttgttaatgtt-ttttgcatt---tgagcagGAACTCCTTGTTTCCGTGGATATGGAAGGCGCAATGGAGAGCGTAGAAGGAAGTCTGTTCGTGGTTGCATTGTCAGTCCAGATCTCTCTGTTTTGAACCT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G26190.1 (Glycine max), 3'ss of exon 3
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgttt---cgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
         | | || | |||| | | | | |      | |  || ||  |    ||| | ||  |   |||  ||  | | |||  || |||     |  |   ||||||||||||||||||||| | ||| |||||||| | | ||| ||  | || ||||||||||||||||| |||||||| ||||| || ||||||||| ||||| |
---------ctttattcattttttaataatgtcatgcatttgttgtatcagg---tgtctctgctttcctttgtctacaaactaattttctttttatttgttacttgaacagGAACTCCTTGCTTCCGTGGATATGGAAGGCGTAATGGAGAACGTAGGAGAAAGTCTGTTCGTGGGTGCATTGTCAGCCCAGACCTCTCTGTTTTGAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G24630.1 (Glycine max), 3'ss of exon 4
gtaactaaacataatacctttt--cttacacttt---tgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
      | |   |||  | |||  ||| ||||        || |||    ||||   ||     ||  ||| ||   |  |||  ||      | ||| | | |   ||| ||||||||||||| ||| | ||| |||||||| | | ||| ||| | ||||| || ||||||||||| |||||||| ||||| || ||||||||| ||||| |
------atatgcaatgacctttagctttcactagaaacctatttatgcaagattctcatagccatgcttgtttgcagtcttgttaatc-----ttttttgcatt---tgagcagGAACTCCTTGTTTCCGTGGATATGGAAGGCGCAATGGAGAGCGTAGAAGGAAATCTGTTCGTGGGTGCATTGTCAGCCCAGACCTCTCTGTTTTGAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA15G08210.1 (Glycine max), 3'ss of exon 4
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
     |  |  || |   |||| ||| |  |  | |   |  |    |||         | |||   | |||   |||  | |  ||||  ||  | |    ||  ||||||||||||| ||| | ||  |||||||| | | ||| ||| | || || |||||||||||||| |||||||| |||||||| ||||||||||| ||| |
----tttgaggtactgtttttttttataact--ggactcaggaaactttta-gccaacctttgttattttttcaatgttaaatttcatttgttgcttacccatg--cagGAACTCCTTGTTTCCGTGGTTATGGAAGGCGCAATGGAGAGCGTAGGAGGAAGTCTGTTCGTGGGTGCATTGTCAGCCCTGACCTCTCTGTTCTCAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G31130.1 (Glycine max), 3'ss of exon 5
-gtaa--ctaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
 ||||    |   ||| |   ||||     |||  |   || ||||   |||| | ||  ||      |||         || |||    ||  ||  | |    ||| ||||||||||||| ||| | ||  | |||||| | | ||| ||| | || || |||||||||||||| |||||||| |||||||| ||||||||||| ||| |
agtaaggtcatgtatatttgttttttaggtactgctttttc-ataaccaatttatgttattggtccaatgt---------taaatttctgtttgttgcttacc--tgagcagGAACTCCTTGTTTCCGTGGTTACGGAAGGCGCAATGGAGAGCGTAGGAGGAAGTCTGTTCGTGGGTGCATTGTCAGCCCTGACCTCTCTGTTCTCAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G09330.1 (Glycine max), 3'ss of exon 2
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
     ||      || | | |   |  | |  |    || || |   |||| |  ||    || | |   |||    |  |||  | |||  | | | || || ||||||||||||||||||| | ||| | |||||| | |  || ||| | || || || | |||||| || |||||||| ||||| ||||||||||||||||||||
---tttatggcagatgcatgtctcttta-tgctatgactttattccttttgaagatggtcttgagggatattt----ttaattctctttgcattg-attgtgttaacagGAACTCCTTGCTTCCGTGGATACGGAAGGCGCAACGGAGAGCGAAGGAGGAAATTTGTTCGCGGGTGCATTGTCAGCCCAGATCTCTCTGTTCTGAACCT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv18s0001g06290.t01 (Vitis vinifera), 3'ss of exon 4
------------------------gtaactaaacataataccttttcttacacttttgcatctataatgg--------atttgtatttgtgtgtgtgtgtgttttgctg---------------tagattaacattgtttc-gtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
                        ||   |  ||  |  ||| || |||  | |||   ||  || | ||        |    | |||   |  |    ||||||| ||               | ||| || | ||||   ||  ||  | | ||||||| ||||||||  ||||| |||| ||| | | ||| |||||||| || ||| |||| ||||| |||||||| ||||  || || |||||||||||| |
gtgggtttttggtggtatattagtgttggtgcactgaccaccattccttcaagtttaagatggatcacggccagttagaagcatgttttgctaggaccatgttttgttgccttgtcatagatgatggatgaaaactgttctagttttgcttaagcagGAACCCCTTGCTTTCGAGGATATGGTAGGCGTAATGGAGAGAGGAGGAGGAAGGCTGTACGTGGGTGCATTGTCAGCCAGGACCTTTCTGTTCTGAACTT

upper sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ14726 (Selaginella moellendorffii), 3'ss of exon 3
gtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
                                           |  |    |  || | | |   | | |    || | | |      || || |  ||  |||| ||||     |||||||  | ||  ||||  |  |   ||||||| |||| || ||||| ||||||||||||||||| |||| |||||| |||||||| || ||
------------------------------------------gtaaaacgatgcttcttttttcttttctccctctttcgttc-----tgatttgagattcgtgaccagGCGACACTTGCTTTCGTGGGTATGGGCGACGCGATGGTGAGCGGAGGAGGAAGTCAGTTCGTGGTTGCATTGTCAGCCATGATCTGTCTGTTCTCAATCT

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|86037904|gb|DR333659.1|DR333659
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|86037944|gb|DR333699.1|DR333699
EST:     AAGCAGGGAGTTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: AAGCAGGGAG-TTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|125048742|gb|EL121011.1|EL121011
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGG
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGG
EST: gi|86040573|gb|DR336328.1|DR336328
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|47828814|gb|CK118498.1|CK118498
EST:     GGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|164152054|gb|ES075347.1|ES075347
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAAC
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAAC
EST: gi|125307136|gb|EL321221.1|EL321221
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTG
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTG
EST: gi|124929059|gb|EL006643.1|EL006643
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGA
EST: gi|164116565|gb|ES087986.1|ES087986
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCT-CAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAA
EST: gi|86037895|gb|DR333650.1|DR333650
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|86037892|gb|DR333647.1|DR333647
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|124845450|gb|EH929887.1|EH929887
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|125084696|gb|EL144816.1|EL144816
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAG
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAG
EST: gi|86037898|gb|DR333653.1|DR333653
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|125281628|gb|EL295713.1|EL295713
EST:     CAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAG
genomic: CAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAG
EST: gi|125118127|gb|EL166972.1|EL166972
EST:     AAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
genomic: AAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAA
EST: gi|124913126|gb|EH987000.1|EH987000
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTT
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTT
EST: gi|125254200|gb|EL268285.1|EL268285
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAGGACATGGAAGGAGAAC
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAAC
EST: gi|125311964|gb|EL326049.1|EL326049
EST:     GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAG                         GAACTCCTTGCTTCAGAG
genomic: GAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaac ... gggtgaacagGAACTCCTTGCTTCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacagGAACTCCTTGCTTCAGAGGACATGGAAGGAGAACTGGTGAGAGGAGAAGAAAGTCTGTTCGTGGTTGCATTGTGAGCCCTGATCTCTCTGTTCTGAACCT
                         gattaac  putative branch site (score: 2)
                          attaacatt  TA-rich tract