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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCTACTGATGATCTACTTAGAGCCATTGACTGTGGAACATCTGAAGGTGGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgttttaaaactaactagcctaaagtcaaatcttcttatttcagagaaaatgtaaatttgatagaatgttgagtcagatgttatgttcctgacactgagcattttcatgattttag

Basic information

species Arabidopsis thaliana
transcript AT5G63980.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63980.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os12g08280.1 (Oryza sativa), 5'ss of exon 4
TGTCTACTGATGATCTACTTAGAGCCATTGACTGTGGAACATCTGAAGGTGGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgttt-taaaactaactagcctaaagtcaaatcttcttatttcagagaaaatgtaaatttgatagaatgttgagtcagatgttatgttcctgacactgagcattttcatgattttag
| ||||  || | | | ||    || ||||||  ||| |  ||||| || ||||||  ||| |||||||||||  | |||||||||||||| ||||||||||  ||||    | |||| |  |       || |   |  |  | |||  ||||  ||||    | |  | ||| |  |  |   |    | |  ||| | || | |             
TCTCTAAGGAAGGTATCCTCTCTGCAATTGACGATGGCAAGTCTGAGGGAGGTCCATCTGGGCGACACTGGGTGCTAGATCCAATTGATGGGACTAAAGGgtgagtttgctgacctaaatctctgggttgcagaatatgctgctgcagtcaaaacataaa----acatca-gttcatccccaccattcactgc--acaatcagaact-------------

upper sequence: AT5G63980.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G09180.1 (Glycine max), 5'ss of exon 4
TGTCTACTGATGATCTACTTAGAGCCATTGACTGTGGAACATCTGAAGGTGGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgttttaaaactaactagcct------aaagtcaaatcttcttatttcagagaaaatgtaaatttgatagaatgttgagtcagatgttatgttcctgacactgagcattttcatgattttag
|  | || |||||| | |||   ||||||||| |||| | ||||||||||||| ||  ||| || |||||||| |||||||| || ||||| ||||||||||  || |     ||   |    |      ||| |  ||| ||||   |   ||       ||| |||       |    | |  ||  |  |||| | |                         
TAACAACAGATGATGTGCTTGCGGCCATTGACGGTGGTAAATCTGAAGGTGGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGGgtgagtatcctttctttttttttttctcaaaaaattcaatattctgtgtgtcgaagtttcataagtttctcttcctacaaaattgga-atcttgttgcagc------------------------

upper sequence: AT5G63980.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G26250.1 (Glycine max), 5'ss of exon 4
TGTCTACTGATGATCTACTTAGAGCCATTGACTGTGGAACATCTGAAGGTGGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgttttaaaactaactagcctaaagtcaaatcttcttatttcagagaaaatgtaaatttgatagaatgttgagtcagatgttatgttcctgacactgagcattttcatgattttag
|  | || |||||  | |||   ||||| ||| |||| | ||||||||||||| ||  ||| || |||||||| |||||||| || ||||| ||||||||||  || |      |   |  |      |||||   |   || ||  |  || | ||  ||   |    ||  |  |||    ||| ||| ||    || |  | ||            
TAACAACAGATGACGTGCTTGTGGCCATCGACAGTGGTAAATCTGAAGGTGGTTCAGTTGGACGGCACTGGGTTTTGGATCCGATAGATGGTACTAAAGGgtgagtatcttttttttttttctc----tcaaaaaattcaatatcctatgaattctatcttctgtgtgttgaagtttca----tta-gtttctcttcctaaaaaattgg----------

upper sequence: AT5G63980.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv04s0044g01480.t01 (Vitis vinifera), 5'ss of exon 4
TGTCTACTGATGATCTACTTAGAGCCATTGACTGTGGAACATCTGAAGGTGGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgttttaaaactaactagcctaaagtcaaatcttcttatttcagagaaaatgtaaatttgatagaatgttgagtcagatgtt-atgttcctgacactgagcattttcatgattttag
| |||   || ||| | ||||  |||||||||| ||| | ||||||||| ||| | ||||| | ||||||||| |||||||| ||||||||||| |||||||  | ||    |   |   ||   || |  |      | |||||  |   |   |   | |   || |||   |   ||||||| |||||   |  |  |                   
TATCTGAGGAAGATGTTCTTACTGCCATTGACTCTGGTAAATCTGAAGGCGGTTCTAATGGCCAACACTGGGTTTTGGATCCTATTGATGGCACCAAAGGgtgagcttggttatagaaatgcaacaatttga----catgatttcttatttatcttgcttctaccagtatg--aaaatagatgtttatgttgtcgtgatggcatga--------------

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|19874586|gb|AU235417.1|AU235417
EST:     GGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGG                         ATTTCTGAGGGGAGATCAATACGCAGTAGCACTAGGATTGCTCGAGGAAGG
genomic: GGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgtttta ... atgattttagATTTCTGAGGGGAGATCAATACGCAGTAGCACTAGGATTGCTCGAGGAAGG
EST: gi|116482884|gb|EG525476.1|EG525476
EST:     GGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGG                         ATTTCTGAGGGGAGATCAATACGCAGTAGCACTAGGATTGCTCGAGGAAGG
genomic: GGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgtttta ... atgattttagATTTCTGAGGGGAGATCAATACGCAGTAGCACTAGGATTGCTCGAGGAAGG
EST: gi|124998655|gb|EL070924.1|EL070924
EST:     GGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGG                         ATTTCTGAGGGGAG
genomic: GGTCCAAATGGTCGACACTGGGTCTTGGATCCAATTGATGGCACTAAAGGgtacgtttta ... atgattttagATTTCTGAGGGGAG