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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggacttgtgtagttacgttgcaattaataatttgctggtgttttctttcattgtgataactatcaaactattgtggtcaaactttaaag

Basic information

species Arabidopsis thaliana
transcript AT5G09900.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G39520.1 (Glycine max), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgta--aggacttgtg-----tagttacgttgcaa--ttaataatttgctggtgttttc---tttcattgtgataactatc----aaactattgtggtcaaactttaaag
||||| || |||||||| ||||| |||||||||||||| ||||| || ||||||||||||  |||  || |      |  ||| |||   |  ||||| ||| ||   |  ||||   || || | |  |  ||       |||    | |  |  || | |  ||
GTGGAAACTTTTGGTGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAAgtactaggcattctactttttccttaagttatgacattaattattggccactaatttcatgttacaatttagttgctgatttgaaaatctctttcatttaattgtgcag

upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G15330.1 (Glycine max), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgta-aggac-ttgtgtagttacgttgca-------attaataatttgctggtgttttctttcattg---------tgataactatcaaactattgtggtcaaactttaaag
||||| || ||||| || ||||| |||||||||||||| ||||| || ||||||||||||  |||| || |    || | |||         |||||| ||| ||   |  |||| |   |||         || | | |   |||    | |  |  || | |  ||
GTGGAAACTTTTGGCGCCATGGCTAAAACTGAGAAAATCGCATTCATTCTTGAACAAgtacgggacattctactttttccttgagtaaggacattaattattggccactaatttcatatgttgctatttagttgctgatttgaaaatctctttcatttaattgtgcag

upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaagga-----cttgtgtagttacgttgcaattaataatttgctggtgttttct-----ttcattgtgataacta---tcaaactattgtg-gtcaaactttaaag
||||| || |||||||| ||||| || ||||||||||||||||| || || ||||||||| ||       ||||||   |  | ||  |  ||||    ||   |  |||||     |||| | |  |  ||    ||| | | ||    ||| || | |  ||
GTGGAAACTTTTGGTGCCATGGCCAAGACTGAGAAAATTGCATTCATTCTCGAACAAgtatgggatatttttgtgttactgtgatgacagcaatagcaggccatttatttcttgtgtttcaatttagttgctgatttcagaatcttccatgtctaattgtgtag

upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G15340.1 (Glycine max), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaagga-----cttgtgtagttacgttgcaattaataatttgctggtgttttctttcattgtgata--------actatcaaactattgtg-gtcaaactttaaag
||||| ||||| ||||| ||||| || |||||||||||||| || || |||||||||||| |        ||||||   |  | ||  |  ||||    |    |  ||||||   |||  ||           ||||| | | ||    |||||| | || ||
GTGGAAACATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagatatttttgtgttactgtgatgacagcaatagcaggtcactaatttcttgtgttgcaattcagttgctgatatcagaatcttccatgtcaaattgtatag

upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggacttgtgtagttacgttg--caattaataatttgc-tggtgttttctttcattgtgat---aacta-tcaaactattgtggtcaaactttaaag---------------------------------------------------------------
||||| ||||||||||| |||||||||||||| ||||||||||| || |||||||||||| |   || | |  || | |||  |  ||||| | ||      | | |||||| |||||  |   || || |   || ||| |  ||  |  |||                                                                  
GTGGAAACATTTGGTGCAATGGCAAAAACTGAAAAAATTGCATTCATTCTTGAACAAgtacgtg-ttatcttctttcattgttcttttaattacttctaccatttattcttttattgttcttttaattacttgtaccatt-tattcgtaacttattttatttttgggttcaaagttgataatgctactttttatgtaataatgttgaaattacttttcag

upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S58_256V6.1 (Physcomitrella patens), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggacttgtgtag---ttacgttgcaattaata-atttgctggtgtttt---------------ctttcattgtgataactatcaaactattgtggtcaaactttaaag---------
|||||||| || |||||||||||||| || ||||||||||| || || || || || |||||||  | | | |   ||||| |    |  |||   | ||| || |||                |||||| | || ||  |  | ||  |||    ||| | |  || |         
GTGGAGACCTTCGGTGCTATGGCAAAGACAGAGAAAATTGCTTTCATTCTAGAGCAGgtaaggaaatttcttggctttacgctatgctgtatatgctagctcgtatttaggaacgatactgaagctttcagtttggtactttccgaatcattac--tcatattagaatgatgttgcag

upper sequence: AT5G09900.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S257_89V6.2 (Physcomitrella patens), 5'ss of exon 5
GTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggacttgt--gtagttacgttgcaatt--aataatttgctggtgttttctttcattgtgataactatcaaa-ctattgtggtcaaactttaaag----------------------------------------------------
||||| || |||||||| ||||||||||||||||| ||||| || || |||||||||||||||| || |   || || |  | |  ||  |  |  |   | | ||||  ||| | |   ||   |||  ||  | ||| | |   ||||  |||                                                    
GTGGAAACTTTTGGTGCCATGGCAAAAACTGAGAAGATTGCTTTCATTCTTGAACAAgtaaggatttttttatatttgcaatcctgttttaccagctactttgcgtttggtttaaatagtatttgtattgaagttcttgagctggcacttcgaagttcttaccgttattttgttagagccagtactgatagtagggtggtgtgccag

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|116434451|gb|EG477043.1|EG477043
EST:     CATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAA                         GTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCT
genomic: CATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggactt ... aactttaaagGTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCT
EST: gi|164087425|gb|ES142486.1|ES142486
EST:     GCATTTATCCTTGAACAA                         GTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCT
genomic: GCATTTATCCTTGAACAAgtaaggactt ... aactttaaagGTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCT
EST: gi|125313119|gb|EL327204.1|EL327204
EST:     CATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAA                         GTTCGCTTGTGCTTGG
genomic: CATTTGGTGCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggactt ... aactttaaagGTTCGCTTGTGCTTGG
EST: gi|164099260|gb|ES090099.1|ES090099
EST:     GCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAA                         GTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCT
genomic: GCTATGGCAAAAACTGAGAAAATTGCATTTATCCTTGAACAAgtaaggactt ... aactttaaagGTTCGCTTGTGCTTGGATCGTCAAGATTTTGTTCGTGCACAAATCTTATCT