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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA

Basic information

species Arabidopsis thaliana
transcript AT1G17720.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 3
--------gtacattaaaac-ttatcaccagatttcacttacgagt-aattgtgttccttgagctactcaa---taagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
         |||||||      |||   |   |||   |   |  | ||||   | | |   |  |||||    || | ||  ||    | |||||  ||||||| || ||||| |||||||| ||||||||||| |||||||| ||||| ||||| ||| |||| |||  | || | |  || || |||||||| ||||
atgaagcattacattattgtgctatgctcttgttttgttcttgcttgaattacttgcatatggaaactcacatctatgtttttttgatgaactgttctagTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCAGACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 3
--gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
   ||   | | |   ||    |  |   | |          ||  || |||||   | |  ||||  |    ||   ||  |  ||||||||| ||||| ||||| ||||| || || ||||| || ||| |||| | |||||||||  |||| ||||||||||||| ||| || || ||||| || |
gtatattctcacaaacattgttaagtggtattatttgtcttctgaattacttgaa--atttgataaagtgatgttgttatg-gaatcagTTTGATTATCTTAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAATGGTGTCAAGCAGCAAATGGTGCATTGTATCTTCTATCCACAAATGACA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
gtacattaaaactta-tcaccag-atttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
||| || |  | ||  |||  |   || |||  ||     || | ||     |||  | |   ||    ||  |    || ||||||||||||||||||| |||||||||||||| || |||||||||||||||||||||||||| ||  |||||||||||||  |||| || ||||||||||| ||||
gta-atcatcatttggtcagtaatgttgcaccaacatcctatgg-gtcagaagagtcaatatttataaatgtatgatcat-tgtttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
gtacattaaaactta-tcaccag-atttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatc--tgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
||| || |  | ||  |||  |   || |||  ||     ||  | |   |      | ||||||    |  | |   |||  ||||||||||||||||||| ||||||||||| || || |||||||||||||||||||||||||| ||   ||||||||||||  | || || ||||||||||| ||||
gta-atcatcatttggtcagtaatgttgcaccaac-----atcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatc--tgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
||| |||   | | |       ||    | |   | |  |||||   |   |     | || |    ||   |   ||   ||||||||||||||||||| ||||||||||| ||||| |||||||| |||||||||| |||||| ||  |||| |||||||| ||||| || || || ||||| ||||
gta-attttcagtcactggttaatgctgcctg-aaatgcttgtggagcagaaatg--ttaacatttatgacatgtgattgttgtttcagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 3
gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatc--tgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
||| |||   | | |       ||    |     | |  |||||   |   |    || || |    ||  ||   ||   ||||||||||||||||||| |||||| |||| ||||| |||||||| |||||||||| |||||| ||  ||||||||||||| ||||| || || || ||||| ||||
gta-attttcagtcactggttaatgctgcccg-aaatgcttgtggagcagaaat--cttaacatttatgacttgtgattgttgtttcagTTTGACTATCTTAAGAGTCTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCTAATGGTGCTTTGTTCCTTCTATCCACAAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
----------------------gtacattaaaacttat---caccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgt-ttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
                       | |  | ||  || |   |||||   ||  || || ||    ||   |  || |  |  |     |  |||||| |   |||||  ||||||||||||||| ||||| ||||| ||||||||||||||||| || ||||||||||| ||| |||| ||||||||  ||||||| || ||||| || ||||
gtatttctttcatcagttactcctgc-ctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgat--gccacattgcttattc-tctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 3
--gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagcta-ctcaataa-gcttgcttttc--aatctgttt-------cagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
  |    ||   |  ||      |   |   ||  |    | |  ||| |  |  ||| || | | | || |||||||   ||| |||||       |||||||| ||| | ||||||||||| ||||||||||| ||||| ||||| || ||||| ||| | ||||||| |||   ||| || ||||||||||| || |
gggattgttctgagatacagtatggcgttgattttgttgcacttcgtttccagttctatcttactgatgcctgcttttttgaatatgtttggttatgcagTTTGATTATTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGGTGGTGCCAGACTGCTAATGCTGCTCAGTTCCTACTTTCTACAAATGACA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S167_51V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------------------------------------------------------------------gtacattaaaa-cttatcaccagatttc----acttacgagtaattgtgttcct--tgagc-tactcaataagct-tgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
                                                                                            || || ||   ||  |   || ||||       || | ||| ||  |  || |  ||| | |  ||  |   |  | || |      |  | |||||||| ||  | ||||||||||| ||||||||||| ||||| ||||| |||||||||||| | || || |  ||   |||  |  ||||||| || || |
gtaatgttagcaacgctaaggtgagtcgtggtaatttttcaagattgcgcccacatagttttctagaatattgatagtttccttaaaatcattatatcaacttctctttttcatatttactaagtttgcaagttatctttatcatattgaccgtgttcggtttacgatactgtatttctttctgcagTTTGATTACTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGTCAGACTGCCAACGCCGCTCAGTTCTTAATTTCTACGAATGACA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------------------------------------------------------------------gtacattaaaacttatcac------cagatttcacttacgagtaattgtgttc-----cttgagctactcaataagcttgcttttcaatctgttt-cagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
                                                                              ||  ||   |  |  ||       ||  |||  || |   ||  | |  ||       ||||  |  | ||     ||| ||   | | | | | |||||||| ||  | || |||||||| || |||||||| ||||| ||||||||||||||  |  |  ||||||||||    || ||||| || ||||| ||||
gtacgttcttgcacttctcttgagcgttagatttccatgtttcactttatttttggtttctacgtgtcacctcaatcataagtttctatgtgccaggtggagcatttttttctgatttgttgtagcattgacaagtttgatgtcttgaactgttttgtttggtactttttgtgcagTTTGATTACTTGAAAAGTTTGGAAATTGAGGAGAAGATCAATAAAATCAGATGGTGCGACACTACTAATGGTGCCCGATTGCTGCTCTCCACAAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 3
-gtacattaaaacttatcaccag-atttcacttacgagtaattgtgttccttgagc-tactcaataagct--tgcttttc--aatctgttt-------cagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
 ||  |   | |||  |   | | | | || || | | ||    ||||  |  | | || |  |  | |   ||||||||  ||| | |||       ||||| || || || ||||||||||| ||||||||||| ||||||||||| |||||||| ||| |  | |||| |||   |||||| ||||||||||| || |
tgtgtagggatactgtttgacggtaatccagttgc-attacacttgttggtcaatcctattttacgaacacgtgcttttctgaatgtattttgttatgcagTTCGATTACCTGAAGAGTTTGGAAATAGAGGAGAAGATCAACAAAATAAGATGGTGCCAGACCACCAATGCTGCCCAGTTTCTACTTTCTACAAATGACA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------gtacattaaaacttatcaccagatttcacttacgagtaatt--gtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
           ||   ||  |  || | |  | | ||    ||    |||||    ||||  ||| |   |  |    | |   |     |   || |||||||| ||  | ||||||||||| ||||||||||| ||||| ||||| |||||||| ||| | || ||||  ||   |||||| |||||||| || ||||
ttatttgttgtgttgttttgattttttgaaaaaaattgtaataattttaatttgaagttcactgatcgttttcactttcgtatatgcttcttctttgcagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGCCAGACTGCCAATGCCGCTCAGTTTCTACTTTCTACCAATGATA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ09063 (Selaginella moellendorffii), 3'ss of exon 3
gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
                     | || | ||  ||   ||  |||||  |   |||||  | ||   ||| |||     ||    ||||||||||| ||||||||  ||||||||||||| || |||||||||||||||||||||||  | ||||| || ||    ||| |  | || || || || |
-----------------gtgcgcttgctctatcgttgaagcgtgttgat---gctac--attacttttgtttt---ggcttccccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ08844 (Selaginella moellendorffii), 3'ss of exon 3
gtacattaaaacttatcaccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
                     | || | ||  ||   ||  |||||      | | ||  || |  ||  ||||    ||    ||||||||||| ||||||||  ||||||||||||| || |||||||||||||||||||||||  | ||||| || ||    ||| |  | || || || || |
-----------------gtgcgcttgctctatcgttgaagcgtgtt------gatgctacattactttttttttttggcttccccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

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|164173855|gb|ES058098.1|ES058098
EST:     TAAAACAGAATTTCAGAGTCATGAACCAGAG                         TTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
genomic: TAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaa ... tctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
EST: gi|116411283|gb|EG453875.1|EG453875
EST:     GGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG                         TTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaa ... tctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
EST: gi|116432328|gb|EG474920.1|EG474920
EST:     GGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG                         TTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaa ... tctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
EST: gi|116478422|gb|EG521014.1|EG521014
EST:     GGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG                         TTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaa ... tctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgtttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA
                                             tctgtttc  CT-rich tract
                                      ttttcaat  TA-rich tract