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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactctatctagagtcatgtcataactattttattttctttctgatgactaatgctgacttttaattggcttacag

Basic information

species Arabidopsis thaliana
transcript AT1G09100.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g56000.1 (Oryza sativa), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtac-----------tctatctagagtcatgtca-taactattttattttctttctgatgactaatgctgacttttaattggcttacag
|||| |||||||||||||| || | ||||||||| ||||||||||| || || || || || ||||| ||||||||||| || |||||||||||||||||||||           ||| | |  |  ||||  | ||   || ||||| |       || |  ||   | | ||||   ||   |||||
CAAAGCTTGTCCGTGATGCCTTTCAGCTTGCAAAGGAGAAATCCCCCTGCATCATTTTTATTGATGAAATTGACGCAATTGGAACAAAGCGTTTTGATAGgtacatttagcattgtctttatcaatgcatgcaactagacatattattgttcacagtataataaactgtaattttttcctg--ctacag

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os04g21660.1 (Oryza sativa), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactctatctagagtcatgtcataactattttattttctt---tctgatgactaatgc---------tgacttttaattggcttacag-----------
||| |||||| |||||||| || | |||||| ||||||||| |||| || ||||| ||||| ||||| ||||| ||||| || |  ||||  |||||||||||    |   |  ||| |  | | |  ||||     | ||   | ||   || ||| |         |  || ||||||   || |||           
CAAGACTTGTTCGTGATGCCTTTCAGCTTGCTAAAGAGAAAGCCCCATGCATTATTTTCATTGATGAAATTGATGCAATTGGAAGCAAGCACTTTGATAGgtatgacaaacatggtcgttccttcatcatttcccacttttgaatatgtgaacaaatacactaggtcttttctgttaatttctttccagcaattgtttgt

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactctatctagagtcatgtca-taactattttattttctttctga--tgactaatgctgacttttaattggcttacag------------------------------------------------------------------------------------------------------------------------
|||| |||||||| ||||| |||| |||||| ||||||||| | |||||||||||||| || |||||||| || || || || || || ||||||||||||||   | | ||      | ||| |   |   | ||||| || |||   || || ||| | ||| || || || | | |                                                                                                                         
CAAAGCTTGTCCGGGATGCATTCCAGCTTGCCAAAGAGAAAGCTCCTTGTATTATATTTATTGATGAGATAGATGCCATTGGCACCAAACGTTTTGATAGgtatgttttgtatgacattttcagttcatgcatgattttattcctgttttggctgatgat-actctttataggatgaaaatgttaatcgcctatacaggatcagagcactttttttgtttcaatttagtgtaaacaaatcattcttattaggaagaagcttatctgatgcatgctccataattttgttctcttggtacag

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G173849_T01 (Zea mays), 5'ss of exon 2
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactctatcta-gagtcatgtcataactattttattttctttctgat--gactaatgctgacttttaattggcttacag---------------------
|||| |||||||| ||||| |||| |||||| ||||||||| | |||||||||||||| || |||||||| || || || || || || ||||||||||||||  |  | || ||    | |      |   |  || | || ||| |  | || ||| | ||| || ||  | | | |                      
CAAAGCTTGTCCGGGATGCATTCCAGCTTGCCAAAGAGAAAGCTCCTTGTATTATATTTATTGATGAGATAGATGCCATCGGCACCAAACGTTTTGATAGgtatgccttttatgacatttttagctcttgcatggttctattcctgctttggctgatgat-actctttatgagatgaaaatgtgaatcagttgcacaagac

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA19G42110.1 (Glycine max), 5'ss of exon 4
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactct---------atctagagtcatgtcataactattttattttctttctgatgact-----aatgctgacttttaattggcttacag------------------------------------------
||||||||||||| ||||| || | ||| ||||||||||| || || || |||||||| || ||||| ||||| ||||| || ||||||||||| ||||||||             || ||||   | ||  | | ||| || | || | | |  | | |     |  ||||  | ||  ||   | | |                                           
CAAAACTTGTCCGCGATGCCTTTCAGCTGGCAAAAGAGAAGTCTCCATGCATTATATTTATGGATGAAATTGATGCAATTGGAACAAAGCGTTTCGATAGgtatgagcaagcaggaatttagatctacgtattcattatcttttcttttctttttttattgggaaagggctggttcttgtttcaataatatcagttttgcaaccttgtgatgttatttggttgctggttgcag

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G29250.1 (Glycine max), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtact---------ctatctagagtcatgtca-----taactattttattttctttctga--tgactaatgctgacttttaattggcttacag-----------------------------------------
|||||||||| |||||||| || |  || ||||||||||| || || || ||||| || |||||||| ||||| ||||| || |||||||||||||||||||| |           || ||||   |  |       | ||| |||| |||  ||| |||  |    |   | || | ||| || | | |                                            
CAAAACTTGTTCGTGATGCCTTTCAACTAGCAAAAGAGAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGTACAAAGCGTTTTGATAGgtattagctggcagtaatttagatatacatttgcaattgacttttttctttcttttttgaggtagagagatcagagtgttacttagttaaattgtctcggttctaactttgatgtatcttgtggctaattgcag

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G39500.1 (Glycine max), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtac--------tc---tatctagagtcatgtcataactattttattttctttctgat----gactaatgctgacttttaattggcttacag------------------------------------------
||||||||||||  ||||| || | ||| ||||||||||| || || || |||||||| |||||||| ||||| ||||| || ||||||||||| |||||||          ||    || ||||   |  |  | | |||    | || ||| |  |    |   |  ||||  | ||  ||   | | ||                                          
CAAAACTTGTCCAGGATGCCTTTCAGCTGGCAAAAGAGAAGTCTCCATGCATTATATTTATAGATGAAATTGATGCAATTGGAACAAAGCGTTTCGATAGgtgtgaggaaaatcaggaatttagatctacctattcattatcccttctttttttttgtattgggaaagggctggttcttgtttcaataatagcagttttgcaaccttgtaatgtttttgggttgctgattgcag

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtact--ctatctagagtcatgtcataactattttatt--ttctttctgatgactaatgctgacttttaattggcttacag-------------------------------------
|||||||||| ||||| || || |  || |||||||| || || || || ||||| || |||||||| ||||| ||||| || || ||||||||||||||||| |  ||  | | |     |  |||  | |   |||   | ||| |     |   |   ||   | |  |    || ||                                     
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 6
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactctatc--tagagtcatgtcataactattttattttctttctgatgactaatgctgacttttaattggcttacag--------------------------------------------------
| ||||||||||||||||| || | |||||| ||||||||||| ||||| || || || |||||||| ||||| || ||||| |||||||| |||||||||||  | ||   | |  |      | | || |  |  | | ||| | |  |   ||  ||  ||  ||||  |     |                                                  
CGAAACTTGTCCGTGATGCCTTTCAGCTTGCTAAAGAGAAATCTCCTTGCATCATTTTTATAGATGAAATTGATGCCATAGGCACAAAGCGGTTTGATAGgtaaaccattattggtttagcactacatctttcatgatatttttatcaaaatggat-ttggattgaaattatcaaggtgaactcatgagcagcctccttgactatagacttttctgccttttattgcag

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|164211878|gb|ES109756.1|ES109756
EST:     GGGACAAAGCGTTTTGATAG                         CGAAGTTAGTGGAGACCGTGAGGTACAAAGGACAATGTTGGAGCTGCTCAA
genomic: GGGACAAAGCGTTTTGATAGgtactctatc ... tggcttacagCGAAGTTAGTGGAGACCGTGAGGTACAAAGGACAATGTTGGAGCTGCTCAA
EST: gi|164125758|gb|ES164010.1|ES164010
EST:     GACGCAATAGGGACAAAGCGTTTTGATAG                         CGAAGTTAGTGGAGACCGTGAGGTACAAAGGACAATGTTGGAGCTGCTCAA
genomic: GACGCAATAGGGACAAAGCGTTTTGATAGgtactctatc ... tggcttacagCGAAGTTAGTGGAGACCGTGAGGTACAAAGGACAATGTTGGAGCTGCTCAA
EST: gi|164138078|gb|ES015529.1|ES015529
EST:     ATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAG                         CGAAGTTAGTGGAG
genomic: ATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtactctatc ... tggcttacagCGAAGTTAGTGGAG