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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgactagtatccttttgctattcatgtaatatatgacattgttacacgtaatgaaaacaaaatgttgacgcag

Basic information

species Arabidopsis thaliana
transcript AT3G52880.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os08g44340.1 (Oryza sativa), 5'ss of exon 6
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgactagtatccttttgctattcatgtaatatatgacatt--gttacacgtaatgaaaacaaaatgttgacgcag---------------------------------------------------------------------------
|||||  |||| || || || ||||| || ||||||||||| ||||  || | || ||||||||| |||||||||||||| | |||||||||||||||||||||||   ||  ||| |||| ||          || ||  ||  |   ||     |  |||| ||  ||     | | |                                                                            
GCTGTGATTGTCGGAGGTGGCTACATAGGACTTGAGCTTAGCGCAGCCTTGAAGACCAACAATTTTGATGTCACTATGGTGTACCCTGAACCTTGGTGCAgtaagtctcct--tattcttt-gcatccagaaagatttactactataaattgtgttttctgaatactcaacagcaaggaaacaaatacctctcatctttatagttgtaacgtatttggccaatgaaatctcatattggagatgccatctgttgtag

upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os09g39380.1 (Oryza sativa), 5'ss of exon 7
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagt-tgactagt-atccttttgctattcatgtaatatatgacattgttacacgt--aatgaaaacaa--aatgttgacgcag------------------------------------------------------------------------------------------
|| ||  |||| || ||||||||||||||||| || |||||||| |  || | ||||||  |||| |||||||| ||||| || |||||||||||||||||||||| | || | | ||  ||| ||||  ||  |  |  |  ||  |  ||| | |   ||||||| ||  | | ||| |                                                                                              
GCAGTTATTGTAGGAGGAGGTTACATTGGTCTAGAACTTAGTGCTGCATTGAAGATCAATGATTTTGATGTCACGATGGTGTTTCCTGAACCTTGGTGCAgtaagtgtcaccactcatattttcgctaaccac-tgttcaactac-ctactacgcatcagatgaaaagaatcagttttgcccatacgattgacatgcagttatgatgtgaaacgaacttatagtggaaactttcgtgatgatgggaatctgacattgtaaaatatcttcttgtag

upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G084881_T01 (Zea mays), 5'ss of exon 6
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagt-tgactagtatccttttgctattcatgtaatatatgacattgttaca---cgtaatgaaaacaaaatgttgacgcag-----------------
|| || |||||||| |||||||| || || || || || |||||||   | | ||||||  | || |||||||||||||| || |||||||||||||||||||||| | |  | |  | | |||| | |  |    | ||   | ||| ||     ||    | |  |      |    | ||                 
GCAGTGGTTGTTGGAGGAGGTTATATCGGCCTCGAACTGAGTGCAGCCCTGAAGATCAATGACTTTGATGTCACTATGGTGTTTCCTGAACCTTGGTGCAgtaagtgtcatcattcacatattgcgactgctaatttgtactcccttgataggaatcggggcggattcccggattgattgtaggttgtagttgtgggtga

upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G134708_T01 (Zea mays), 5'ss of exon 6
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagt-tgactagtatcct--tttgctattcatgtaatatatgacattgttacac-gtaatgaaaacaaaatgttgacgcag-----------------------------
|||||  ||||||| || |||||||| || ||||||||||| || |  || |  |||||||| || ||||| || ||||| | ||||||||| ||||||||||||| |   ||   |      ||   |  |||||   ||         |||  | |  |  |  ||  |   ||     |                              
GCTGTGATTGTTGGAGGTGGTTACATAGGGCTTGAGCTTAGCGCTGCCTTGAAAATCAACAACTTCGATGTGACCATGGTGTACCCTGAACCGTGGTGCAgtaagtctcgttaacctgaaagcttatcacgcatgttccatcctctggaattattctgagacaactactgaccttttctctacgttctgaatttgatctcttctacttctag

upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA0169S00210.1 (Glycine max), 5'ss of exon 6
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgactagtatccttttgctattca---tgtaatatatgacattgttacacgtaatgaaaacaaaatgttgacgcag--------------------
||||| |||||||| ||||| ||||||||||| |||||||||||||| || |   |||||||| | ||||| || ||||| | ||| || |||||||| ||||||| || | || ||||||| |   ||    | | || | | ||      |   ||| |  ||| ||  | |  ||  |                     
GCTGTGGTTGTTGGGGGAGGATACATTGGTCTGGAGCTTAGTGCAGTGTTGAAACTCAACAATATTGATGTTACCATGGTCTACCCGGAGCCTTGGTGTAgtaagt-gatt-gtttccttttacacctcccactctcatctgttacccgcacatttgtattttaaaaaagttataaactaacattgtaaactgatgttacag

upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G07820.1 (Glycine max), 5'ss of exon 6
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgactagtatccttttgc--------tattcatgtaatatatg-acattgttac----acgtaatgaaaacaaaatgttgacgcag---------------------
||||| |||||||| ||||| ||||||||||| |||||||||||||| || |   |||||||| | ||||| || ||||| | ||| || |||||||| ||||||| ||   || ||| ||| |           ||||||  |      |||||  ||     |  |  | | || ||| |  | |   |                      
GCTGTGGTTGTTGGGGGAGGATACATTGGTCTGGAGCTTAGTGCAGTGTTGAAACTCAACAATATTGATGTTACCATGGTCTACCCGGAGCCTTGGTGTAgtaagtggat--gtttccatttacacctcccactctcatgtgttgcccacacatttgtatttcaatttttttataaaaaagttataaaataacattgtaaactgatgttgcag

upper sequence: AT3G52880.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0007g03610.t01 (Vitis vinifera), 5'ss of exon 6
GCTGTAGTTGTTGGCGGAGGTTACATTGGTCTTGAGCTTAGTGCAGTTTTAAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgactagtatccttttgctattcatgtaatatatgac--attgttacacgtaatgaaaaca---aaatgttgacgcag----------------
|||||  ||||||| || || ||||||||||| ||||||||||||||  | |  |||||||| ||||||||    |||||||  || ||||| |||||||||||||  |  | || |  |   ||  || |||| | |    |  | || || |     ||         |||  || | |                   
GCTGTGATTGTTGGAGGGGGGTACATTGGTCTCGAGCTTAGTGCAGTGATGAAAATCAACAACTTAGATGTTTGCATGGTTTATCCAGAACCATGGTGCAgtaagtatagaattaccaatgaactgatcctgtattctggttctgactgctagattctttgtttgtccttaaagatttaagggttccaactaatgttgct

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|86038365|gb|DR334120.1|DR334120
EST:     AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCA                         TGCCTAGGCTTTTCACCGCCAATATTGCTGCTTTCTATGAGACTTACTATA
genomic: AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTACTATA
EST: gi|124742418|gb|EH833580.1|EH833580
EST:     TGAACCTTGGTGCA                         TGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTACTATA
genomic: TGAACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTACTATA
EST: gi|164091020|gb|ES176555.1|ES176555
EST:     AAGGATCAACAATTTAGATGTCACTATGGTTT-CCCTGAACCTTGGTGCA                         TGCCTAGGCTTT-CACCGCCGATATTGCTGCTTTCTATG
genomic: AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATG
EST: gi|124912711|gb|EH986703.1|EH986703
EST:     ACCTTGGTGCA                         TGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTACTATA
genomic: ACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTACTATA
EST: gi|86038356|gb|DR334111.1|DR334111
EST:     AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGAA                         TGCCTAGGCTTTTCACCGCC
genomic: AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCC
EST: gi|86038357|gb|DR334112.1|DR334112
EST:     AAGGATCAACAATTTAGAGGTCACTATGGTTTTCCCTGAACCTTGGTGCA                         TGCCTAGGCTTTTCACCGCCAATATTGCTGCTTTCTATGAGACTTAC
genomic: AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTAC
EST: gi|301501396|gb|HO206936.1|HO206936
EST:     AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCA                         TGCCTAGGCTTTTCCCCGCCGATATTGCTGCTTTCTATGAGACTTACTATA
genomic: AAGGATCAACAATTTAGATGTCACTATGGTTTTCCCTGAACCTTGGTGCAgtaagttgac ... gttgacgcagTGCCTAGGCTTTTCACCGCCGATATTGCTGCTTTCTATGAGACTTACTATA