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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTGGGGTTACTTTAGGTCCTAAAGGCAGGAATGTTGTTCTAGAGAGCAAATACGGTTCCCCTAGAATCGTTAATGATGGTGTTACGGTCGCTAGAGAGgtaacggtgttatctcttgttgtgtctaatgtgtaatcaggtgtgaaatcgatttgtagattttgaaaagcttttgctgtttgtttag

Basic information

species Arabidopsis thaliana
transcript AT5G56500.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56500.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 5'ss of exon 3
AGTTGGGGTTACTTTAGGTCCTAAAGGCAGGAATGTTGTTCTAGAGAGCAAATACGGTTCCCCTAGAATCGTTAATGATGGTGTTACGGTCGCTAGAGAGgta-acggtgttatctcttgttgtgtctaatgtgtaatcaggtgtgaaatcgatttgtagat-tttgaaaagcttttgc----------tgtttgtttag
 ||||| |||||  | || || || || |||||||||||| | |||||||| || || |||||||| || || |||||||||||||| || || ||||||||| |      | | | |||       ||   |  |||    |   || | | ||  | | | | ||  |  |||   |          ||||||||| |
TGTTGGAGTTACACTGGGACCAAAGGGAAGGAATGTTGTTTTGGAGAGCAAGTATGGGTCCCCTAGGATTGTCAATGATGGTGTTACAGTTGCAAGAGAGgtatattacagtgtttattgcgtcaaatagcattgaatttccttacaatttgcttgtttgctgtatgctatacttccacagaaaaaaaatgtttgttttg

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G133698_T03 (Zea mays), 5'ss of exon 3
AGTTGGGGTTACTTTAGGTCCTAAAGGCAGGAATGTTGTTCTAGAGAGCAAATACGGTTCCCCTAGAATCGTTAATGATGGTGTTACGGTCGCTAGAGAGgta----acggtgttatctcttgttgtgtctaatgtgtaatca--ggtgtgaaatcgatttgtagattttgaaaagcttttgctgtttgtttag-------------------------------------------------------
                         || |||||||||||| | |||||||| || ||||| |||| ||| ||||| ||||||||||| || || |||||||||     |  ||||| |  | |||||   ||   | | ||     |   | ||   |  |  |  || |  | |  |||| ||     | | |                                                       
------------------------GGGAAGGAATGTTGTTTTGGAGAGCAAGTATGGTTCTCCTAAAATTGTTAACGATGGTGTTACAGTTGCCAGAGAGGTACAGTGCAATGTTACCA-TGGTTgtacttagaatttgattgctagctcgtaaattacata-acgttgtatatatttttttctccaattcttgtcatacatgttttacaggtcatattcttataacccatgtaatgcatatactttag

upper sequence: AT5G56500.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 3
AGTTGGGGTTACTTTAGGTCCTAAAGGCAGGAATGTTGTTCTAGAGAGCAAATACGGTTCCCCTAGAATCGTTAATGATGGTGTTACGGTCGCTAGAGAGgtaacggtgttatctcttg-ttgtgtctaatgtgtaatcaggtgtgaaatcgatttgtagattttgaaaagctttt--gctgtttgtttag------------
||| || |||||| | ||||| ||||||||||||||||| ||||||||||| || || ||||| | ||| |||||||||||||| || || || | |||||||  | |    ||| ||  || | | |||  | || |    ||     |  | ||| | ||     |||||      ||| |  |||| |            
AGTGGGAGTTACTCTTGGTCCAAAAGGCAGGAATGTTGTCCTAGAGAGCAAGTATGGCTCCCCAAAAATTGTTAATGATGGTGTAACTGTGGCCAAAGAGgta-tgttaagttctattaattttttttaagttctagttt--tgcttttttaagttgaatatggaacaaagccagcaggctataagttttgtcaatttctctt

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|19875387|gb|AU236218.1|AU236218
EST:     AATACGGTTCCCCTAGAATCGTTAATGATGGTGTTACGGTCGCTAGAGAG                         GTTGAGCTTGAGGATCCAGTTGAGAACATTGGTGCTAAGCTAGTGAGACAA
genomic: AATACGGTTCCCCTAGAATCGTTAATGATGGTGTTACGGTCGCTAGAGAGgtaacggtgt ... gtttgtttagGTTGAGCTTGAGGATCCAGTTGAGAACATTGGTGCTAAGCTAGTGAGACAA