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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaagctgtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT

Basic information

species Arabidopsis thaliana
transcript AT3G10850.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G031825_T05 (Zea mays), 3'ss of exon 3
gtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaagctgtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
                                                                |||       |||| | | |  |     ||||      ||    |||| |   ||| || | |||  ||  |    ||||||||  ||||||| ||||||||||||||||| ||  | || ||||| |||||||||||  |   ||| || |||| | |  | || ||  | || |  ||||
--------------------------------------------------------------gttagtatacacatctttcttagagc---gatggtttcttttggttgttatatcataacctttttttttttgaa----atacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTATCAGTCCCTTATTGTTACACTGGGTTCGCTGCCAAAGTCAACCCGAGTTT

upper sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA14G36610.2 (Glycine max), 3'ss of exon 4
----------------------------gtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagat-agttatgagttaaacat--taag---ctgtgtttact------ttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
                              |    | |  | | |  || |    | |||    |  || || |  |  | ||| ||   |    ||  ||| ||||||| ||    |   || | || | || |||    | | |  |||    |||  |||| |      ||| || | |||||||| ||||| | |||||||| ||||||||||| || || || ||||||||||||||  |   ||| || || ||| ||||||| ||  | || |  || |
gtaagatgactgctcaatctttttaacatcacaaagaagtagttatttggaaaa-catgtaaagctgtaacaagtgct-tgtatttttcgctctcattctttctctctgtgaaaactttcgtgtatatgaattttgaagagatccttttaaatctctggatttattgtgttattgtttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTATCAGTCACTTAATGTAACACTCGCTTCATTACCAAAGTCAACTCGAGTAT

upper sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G38460.1 (Glycine max), 3'ss of exon 3
--------------------------------------gtaagtggtaacattaagctgaatcctcttgttctt----ccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaag----ctgtgtttactttgattttat------acagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
                                      |||  |  |   |  |     |||   ||| |||||    |  | ||| |  |  | ||| ||   |    ||  ||| |||||| | |  |     |  |   |  |   |||    | || |     |||  ||||   || | || |      ||||||| ||||| | |||||||| ||||||||||  || ||||| ||||||||||||||  |   ||| || || ||| ||||||| ||  | || |  || |
gtaagatgactgctcaatctttttaatatcacaaagaagtagttatttggaaaacatgtaataaacttattcttaaagctgtgccaagtgct-tgtatttttggctctcattctttctctctgaacactttcgtgtatatgaatcttgaagtggtccttttaaatctctggatttatcgtgttattgttgccctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGAAACTGCTGAACAGATGTATCAGTCACTTAATGTAACACTAGCTTCATTACCAAAGTCAACTCGAGTAT

upper sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G40210.1 (Glycine max), 3'ss of exon 5
gtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaagctgtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
                                       | ||| |  |  |  |     |   || ||   ||| || |     | |||  |||   ||  ||| || |||    ||  | | |  |  |||   |||| |||||||| ||||||  |||||||| |||||  |||| || || |||||||||||||||||  | ||||| ||  | | | ||||||| || || ||||  ||||
--------------------------------------atgccaagtgct-tggagccagtgtatatatgacttaccttttggcctctctctatgtgaatgctta-gattta----tttcgttat--taccttcttttttttacagTTTATTGCTGATTGTGGGAAATTTTTCAAAGGAACTGCAGAGCAGATGTATCAGTCACTATGTGTAACATTAGGTTCATTACCAAAGCCAACACGAGTTT

upper sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G14600.1 (Glycine max), 3'ss of exon 4
------gtaagtggtaacattaagctgaatcctcttgttcttccctac-catggaccctatatgttctccgtagatcttttatctctg--taaatgtctaa-atggaga-----tagttatgagttaaacattaagct-gtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
         |  |   ||| |||  ||| ||     | | | ||     | ||||  || | | |    | | |   |||| ||| ||  |  |||| ||  ||| |||     || ||   | |   | ||| |  | ||  || |      ||| || ||||| ||||||| |||||||| ||||||||||| || || || ||||| ||||||||  | ||||||||  | | | ||||||| || || ||    ||||
gttcttaggaaagaatacaataaattgattctaaaagctatgccaagtgcttggaatctgtgtatatgactt-gcctttttgtctatgcttttatgtatattatgaagaggtcctactttaaaatcctatatttattttgttattgcacgcgctttctatagTTTATTGCTGGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATATATCAGTCACTCTGTGTGACATTAGGTTCATTACCAAAGCCAACCAGAGTTT

upper sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv13s0067g00180.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatga-gttaaacattaagctgtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
                                       |  |  |  |||| ||  || |    | ||||| |   | | | | |  |||          |||| || |||||||| | |   ||| ||||||      | | |||||||||||||| |||||||| ||||||||||| ||||| || ||||||||||| ||| | ||||| ||  ||||  |||| || || || ||    || |
-------------------------------------aatgactggatccctttactttgtaataaaatcttgttcttttttgacttgcta----------gttacgatgttaaacagttaatagtggttacttcatgcatgtgcagTTTGTTGCTGGTTGTGGGAAATTTTTTGAAGGCACAGCAGAACAGATGTATCAATCGCTATGTGTAACATTGGCCTCATTGCCAAAGCCAACTAGAGTAT

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|19876010|gb|AU236841.1|AU236841
EST:     TGAACGGAAAAGAACGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTNTGTTGCTGGATGTGGGAAGTNTTTNTGAAGGGACA
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTT-TGTTGCTGGATGTGGGAAGTTTTT-TGAAGGGACA
EST: gi|124812895|gb|EH897761.1|EH897761
EST:     TTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAG-TTTTTGAAGGGACAGCTGAGCAGATGTAT
genomic: TTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
EST: gi|86023772|gb|DR319525.1|DR319525
EST:     TGACCGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
EST: gi|86023773|gb|DR319526.1|DR319526
EST:     TGACCGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCA
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCA
EST: gi|124822321|gb|EH907187.1|EH907187
EST:     TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGAT
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGAT
EST: gi|125061220|gb|EL129859.1|EL129859
EST:     CGGAGATACACTT                         TTTGTTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
genomic: CGGAGATACACTTgtaagtggta ... ttttatacagTTTG-TTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
EST: gi|124952367|gb|EL027644.1|EL027644
EST:     TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGG
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGG
EST: gi|86023775|gb|DR319528.1|DR319528
EST:     TGACCGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAG
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAG
EST: gi|164131021|gb|ES181972.1|ES181972
EST:     CCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGACTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
genomic: CCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTG-CTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTA
EST: gi|125127735|gb|EL172418.1|EL172418
EST:     TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGA
genomic: TGAACGGAAAAGAAGGAGAAAACCCAGCCGTGTTCACCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGA
EST: gi|124902265|gb|EH976345.1|EH976345
EST:     CCGGAGATACACTT                         TTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT
genomic: CCGGAGATACACTTgtaagtggta ... ttttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggagatagttatgagttaaacattaagctgtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT
                                   tttactttgattttat  TA-rich tract