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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGCCAGTTATCCAAGCACTTGCAGCGGAGGTTAGACAAACAACTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGgtttcatgtgaatacagtttttatttttggtattcagtaactatggaatggttaagcttagcaatcaagaaggctcaatatctggttgatgctctctgtttcag

Basic information

species Arabidopsis thaliana
transcript AT5G11980.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G11980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G006781_T03 (Zea mays), 5'ss of exon 5
ATTGCCAGTTATCCAAGCACTTGCAGCGGAGGTTAGACAAACAACTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGgttt-catg--------tgaatacagtttttatttttggtatt-cagtaactatggaatggttaagcttagcaatcaagaaggctcaatatctggt-tgatgctctctgtttcag----------------------------------------------------------------
 || || ||| |||||| | | ||  | || || |   | |||   || ||| |  | |||||||||||||||||||| || |||||||| |||||   ||||        |||| |   ||| |   |||  ||||  ||  | ||||  |||  |      || |    || |  | |   | |        |  | ||     ||                                                                 
TTTACCTGTTGTCCAAGGATTAGCCACTGAAGTCAAGAAGACAGTGCAATCATTAGTTTCACAGCTTCTCCAGAAACTTCGATCAAATATTCAGgtgaacatgcggtgtaatgaagaatatttatgacttttatattgtagagattatgttatgtatgtatccagtatggcagtattcaccccaccaaacactctagtttcacccccaaattgcttgacatatccatcctgagcacaaatttatctaaacggtcaattcattttctactacag

upper sequence: AT5G11980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G04920.1 (Glycine max), 5'ss of exon 4
ATTGCCAGTTATCCAAGCACTTGCAGCGGAGGTTAGACAAACAACTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGgtttcatgtgaatacagtttttatttttggtattcagt-aactatggaatggttaagcttagcaatcaagaaggctcaatatctggttgatgctctctgtttcag----------
 || |||||||| |||||  | || || || ||||| |  || || || |||||||| || |||||||| |||||||| ||||||||||| |||||||       |||||||  |||| |||  ||| ||   || |      || ||   |||       || | |  ||  ||| | |||  |  |  |||| ||            
GTTACCAGTTATTCAAGCGTTGGCTGCAGATGTTAGGCTGACTACCCAATCACTTCTTTCTCAGCTTCTTCAGAAACTTCGCTCAAATATTCAGgttt-------atacagtgattatatttaatatgcaaagaaatgccacttgatttttcttga-----aaaatgtttctgtatgtagtttcttattactgtatcttcctttgctag

upper sequence: AT5G11980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G22880.1 (Glycine max), 5'ss of exon 4
ATTGCCAGTTATCCAAGCACTTGCAGCGGAGGTTAGACAAACAACTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGgtttcatgtgaatacagtttttatttttggtattcagt-aactatggaatggttaagcttagcaatcaag--aaggctcaatatctggttgatgctctctgtttcag---
 || |||||||| |||||  | || || || ||||| |  || || || |||||||| || |||||||| |||||||| ||||||||||| |||||||       || ||||  |||| |||  ||| ||   || |      || ||   |||   ||              | | |||  ||  |||    |  ||      
GTTACCAGTTATTCAAGCGTTGGCTGCAGAAGTTAGGCTGACTACCCAATCACTTCTTTCTCAGCTTCTACAGAAACTTCGCTCAAATATTCAGgttt-------atgcagtgattatatttaatatgcaaagaaatgccacttgatttttcttgaaaaatgtttctgtatgtagtttcttattactgcatcttcctttgctag

upper sequence: AT5G11980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv04s0008g01350.t01 (Vitis vinifera), 5'ss of exon 5
ATTGCCAGTTATCCAAGCACTTGCAGCGGAGGTTAGACAAACAACTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGgtttcatgtgaatacagtttttatttttggtattcagta-actatggaatggttaagcttagcaatcaagaaggctcaatatctggttg-atgc-tctctgtttcag
||||||||| || |||||||| || || || ||||| |||||||| || || |||||    ||||||||||||||||| || |||||||| | ||| |  |||         |  ||  ||  | ||     | | ||  | ||  |  ||  |    ||    ||   | ||||| |   || ||   | | |||| |||
ATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTGgtatattgt--------ctgctacattaagcatgtgacacaataatggataatctaggatgtgcattggaaattttgaatattttcctggatatatatgtgttgcag

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|116461241|gb|EG503833.1|EG503833
EST:     CTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAG                         TTACCAGAATGTCTCCGCATTATTGGATACTTACGCCGAATAGGTGTCTTT
genomic: CTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGgtttcatgtg ... tctgtttcagTTACCAGAATGTCTCCGCATTATTGGATACTTACGCCGAATAGGTGTCTTT