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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag

Basic information

species Arabidopsis thaliana
transcript AT3G15980.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttt--tcttagactaattttcatgc--ttgttcatattcag
||| || || ||||| ||||| |||||||| ||||||||   |||||| || ||||||||||| |||||||| |||||||| |||||||| ||  ||||||| ||  |    |     |  |    ||   |||| |||||    |     | || ||| |    ||  |||     | | | |  |||  || || |  |||||
TCAAATCTTCGAGGGGCATTCTCACTATGTTATGCAAGTCACATTTAACCCGAAAGATACCAATACTTTTGCTAGTGCTTCACTTGATCGCACAGTAAAGgtttgcgat---tttgttccttacatttgcttggcatagtttttgc-----atttctaacatttcttggtctggatttgaatgtggtgcccttatttaatttcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag
||| || |||||||||||||| ||||| |||||||||||    || |||||||| ||||| ||||||||||| ||||| || ||||| || || | |||||| |||   |    |    |   ||    | |   | |   |  |   ||   |||||  |||   ||  |  ||||||  |  |     |  |    |||
TCAAATCTTTGAGGGACATTCACACTACGTGATGCAAGTTACTTTCAATCCAAAGGATACTAACACTTTTGCAAGTGCATCTCTTGACCGAACTACAAAGgtctgtttcacaatctcttatgcagtggatgttattca--caatatatggc-tttttatgaggtgatttgtgcactaatggttctaaaactgaaacaacag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagt---tagcacgaggtacttttaaaagggttttcttagactaatttt--catgcttgttcatattcag---
||| ||||| || || ||||| |||||||||||||||||   |||||| ||||||||||||||||| ||||| |||||||| || ||||| || |||||||| |||   |  ||         || | |  | | | |     | | |  |  |    | |  ||  ||||| |||  | ||  |   || ||  ||  | |  |    
TCAAATATTCGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACCAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgtaatctctgctttaaaagttctggttggtcacaatgttgtattatttgtcgtcattagctttttcatagtttgatggtgatatcctaatttctgtctatcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G124886_T04 (Zea mays), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggctta----gtt--agcacgaggtactttta----aaagggttttcttagactaattttcatg-cttgttcatattcag------
||| |||||||| || ||||| |||||||||||||||||   |||||| ||||||||||| ||||| ||||| |||||||| || ||||| || |||||||| |||   |  |||        |  | |  | |   |    |||  |  |   |||||    |    | ||  ||||| |||  | ||  | ||  | | ||  |  |||       
TCAAATATTTGAAGGGCATTCTCACTATGTGATGCAAGTTACATTTAACCCAAAAGATACAAACACCTTTGCTAGTGCTTCCCTGGATCGCACAATAAAGgtttgtgttatctccgctttaaaaattctggttggccacaatgttgcattatttggtaccgacaggcgacagctttttcatagcttgatggtgatatcctattttttgtcaatatcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 7
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgta-agaggtccaagcac---tgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag
||| || |||||||| || || |||||||| ||||||||   |||||| || ||||| || || |||||||| |||||||| |||||||||||  ||||||| |    | | ||   |       | |    | |||  ||| ||  | ||   | || ||     |  ||    ||   ||||||| |   |    || |  ||
TCAAATTTTTGAGGGCCACTCTCACTATGTCATGCAAGTCACATTTAACCCCAAAGACACAAATACTTTTGCTAGTGCTTCTCTTGATCGTACTGTAAAGgtatacccatatgttttattttgttttaatgataatgtattaattt-ctcgttttcctctttgctagccttaacgag--caattttctttacttgaaatttctag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G000645_T03 (Zea mays), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag
||| ||||||||||||||||| |||||||||||||| ||    || |||||||| ||||  ||||| ||||| ||||| || ||||| || || | |||||| ||       |    ||| |    || |   ||  || |   |   |  |||  | |   | | || ||    ||   ||| | |||  | |  | |||
TCAAATATTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAATCCAAAGGATATTAACACCTTTGCAAGTGCATCCCTTGACCGCACTACAAAGgtatgcc-----tttttgcaata---ttatgcagcg-agatgttaactgcgactcatgatgtgatcttgttcatttatacttcttactt--tgaactgcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 5
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtg---taagaggtccaagcactgagctttta----tggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag
||| || |||||||||||||| |||||||||||||| ||    || || ||||| ||||  ||||||||||| ||||| || |||||||| || | ||||||| |   | | |     | | |   || | |||     | || ||| |  | | | |  | || |       |||| |  || |  ||   |               
TCAAATTTTTGAGGGACATTCACACTATGTGATGCAGGTTACTTTCAACCCAAAGGATATTAACACTTTTGCAAGTGCATCTCTTGATCGCACTACAAAGgtgcgccttgacaatattatggagcaagatgttagttgcgactgagtcaagatgtgatcttgttcattcatacttctcactctgaaattgtag---------------

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaa--gaggtccaagcactgagcttttatgg-------cttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgct-tgttcatattcag
 |||||||||||||||||||| || ||||| |||||||||  ||||||||| ||||| || ||||| ||||||||||| || |||||||| ||||||||||| | ||   | | ||    | ||     | |   |        ||  |||   | |   |  | | | |    |||   ||     | || ||| | | ||||  | |||
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatatacatgtgttcttctcgctagttgtgtcctgaattttctttgtttatttccatacatctatgataaaaatttaaaagtaatgtattaatgttatcttcaattgcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggc-------ttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgct-tgttcatattcag
 |||||||||||||||||||| || ||||| |||||||||  ||||||||| ||||| || ||||| ||||||||||| || |||||||| ||||||||||| |  | | | ||      ||     | |   ||       ||  |||   | |   || | | | |    ||    ||     | || ||| | | ||    | |||
CCAGATATTTGAGGGACATTCTCATTATGTCATGCAAGTGACATTTAATCCTAAAGACACAAACACCTTTGCCAGTGCATCTCTTGATCGCACCATAAAGgtatacatgtgttcttcttgctagttgtgtcctgcattttctttgtttatttccaaacacctatgataaaaattaaaaagtaatgtattaatgttatcttttcttgcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggtt----ttcttagac-taatt--ttcatgc--ttgttcatattcag------
 ||||||||||| || ||||| || ||||| ||||||||   ||||||||| ||||| || ||||| ||||| ||||| || |||||||| || ||||||||||      | ||      |||    ||| |   |||   |  |  |         | ||    |    | ||  ||  ||||   || ||||   ||||   ||          
CCAGATATTTGAAGGTCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCAAGTGCATCTCTTGATCGGACAATAAAGgtgtaattatgttcttgttcctggatgtttcttttttaaaaaaaaaaaaaagtaaaaagaaaaactatgatcctatgatataatgcattgatgcaactgttatcatctcttttcag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag
 ||||||||||| || ||||| || ||||| ||||||||   ||||||||| ||||| || ||||| ||||| ||||| || |||||||| || ||||||||  | |  | || |  |  |   | | ||    | ||  |   |  | | | |  |  |   ||| ||||       ||||||                 
CCAGATATTTGAAGGCCATTCTCATTATGTCATGCAAGTAACATTTAATCCCAAAGACACAAACACCTTTGCTAGTGCATCTCTTGATCGGACAATAAAGgta-gaattatgttcttgttcctggttgttt---ccta--tgatataatgcattaatgcacctgttgtctt----ctcttttcag----------------

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtg--taagaggtccaagcactgagctttta--tggcttagttagcacgaggtacttttaaaagggt---tttcttagactaattttcatgct-tgttcatattcag
|||||| |||||||| || || || |||||||||||||||  |||||||||||||||||||||||||||||| ||||| || || ||||| ||||| ||||| ||     ||  | |        |  | |||  ||  ||  ||  |      | |||    |||  |   | |  ||       | | ||| | | | | | | |||
TCAGATCTTTGAGGGCCACTCTCATTATGTGATGCAAGTGACATTTAATCCAAAAGATACCAACACTTTTGCTAGTGCATCTCTGGATCGCACCATTAAGgtatgatctggattttctgttggcaacttgttaactgcatttttttaccaattttgcttcatcaagtatgagtgtgctatttatgctctgatgatatctccttttccag

upper sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 6
TCAGATATTTGAGGGACATTCGCACTATGTGATGCAAGTGGTATTTAATCCAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtg--taagaggtccaagcactgagcttttatggcttagttagcacgaggtacttttaaaagggttttcttagactaattttcatgcttgttcatattcag
|||||| ||||| || ||||| ||||| ||||||||||||  ||||||||||||||| |||||||| ||||| ||||| || || ||||| || |||||||||||  |   |           | | || || ||   | |       |    | | |   || | |  || |    || ||    |  ||| |  | |    
TCAGATTTTTGAAGGGCATTCTCACTACGTGATGCAAGTGACATTTAATCCAAAAGACACCAACACCTTTGCAAGTGCCTCCCTCGATCGCACTATAAAGgtgtgagtggaaatgtttcttgataacctgttgtgaacttgaagatgtgtttcaatgtcctaatgttgatccttccatagttgattttattgattgtgtg---

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|116382436|gb|EG425028.1|EG425028
EST:     CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAG                         ATATGGAATCTTGGTTCCCCAGACCCAAATTTTACACTGGATGCTCATCAG
genomic: CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaaga ... tcatattcagATATGGAATCTTGGTTCCCCAGACCCAAATTTTACACTGGATGCTCATCAG
EST: gi|116382435|gb|EG425027.1|EG425027
EST:     CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAG                         ATATGGAATCTTGGTTCC
genomic: CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaaga ... tcatattcagATATGGAATCTTGGTTCC
EST: gi|116382437|gb|EG425029.1|EG425029
EST:     CAGAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAG                         ATATGGAATCTTGGTTCCCCAGACCCAAATTTTACACTGGATGCTCATCAG
genomic: CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaaga ... tcatattcagATATGGAATCTTGGTTCCCCAGACCCAAATTTTACACTGGATGCTCATCAG
EST: gi|116382434|gb|EG425026.1|EG425026
EST:     CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAG                         ATATGGAATCTTGGTTCCCCAGACCCAAATTTTACACTGGATGCTCATCAG
genomic: CAAAAGATACCAACACTTTTGCCAGTGCTTCGCTTGATCGTACCATAAAGgtgtgtaaga ... tcatattcagATATGGAATCTTGGTTCCCCAGACCCAAATTTTACACTGGATGCTCATCAG