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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttctttctactttttgcttaatcttattgccaacacttttttttctctaaatcttcttccctttcatactctgtcag

Basic information

species Arabidopsis thaliana
transcript AT5G45430.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g02550.2 (Oryza sativa), 5'ss of exon 7
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttctttctactttttgct--taatct--tattgccaacacttttttttctctaaatcttcttccctttcatactc-tgtcag
||  |  | || ||||| ||||| ||||||||||| || |||||||||||  |||| ||||||||  ||| |||||| ||||| |||||||| |   | | |  | |    |||  | || |   |||    ||   |    |  |  || | || |    || | |  |  | | ||
TCTTTGCGAAGGATGAACCATCCGAACATTGTGAAACTCAAGGAAGTCATAAGGGAGAATGATATGTTATTCTTTGTTTTTGAATACATGgtttgtatttcttaattagacgcttttgatttggcatttgtgacctctgaagtgattgaagttttttctgtttacgtggtgattttag

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 7
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttctttctactttttgcttaatcttattgc--caacacttttttttctctaaatcttcttccctttcatactctgtcag
||  |  |  | ||||||||||| |||||||||||||| || || || ||||| |||||||||||  |||||||  |  | || ||||||||| |  | ||     |      |  ||  || |||  ||  ||| |  | |   | |||||    |  | |  | ||       
TCTTTGCGGCGCATGAATCATCCTAACATTGTGAAGCTCAAAGAGGTTATCCGAGAAAATGATATATTATACTTCATAATGGAATACATGgtaaatatgttatggatagcaaat--attctactgcgtcattactgtgctcttgttgaatctgaaccattgtttttctag-----

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G178822_T01 (Zea mays), 5'ss of exon 8
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttctttctactttttgctta-atcttattgccaacacttttttttctctaaatct---tcttccctttcatactctgtcag
||  |  |  | ||||||||||| |||||||||||||| || || || ||| |||||||||||||  |||||||  |  | || ||||||||| |  | ||   |  | | ||  | ||  || ||| | || | || | |   | |||||    | |   ||| |||         
TCTTTGCGGCGCATGAATCATCCTAACATTGTGAAGCTCAAAGAGGTTATCAGGGAAAATGATATATTATACTTCATAATGGAATACATGgtaaatatgtt---atgtatagcaaatattctactgc-accattattgtgttcttgaatctgaacccttgtttttatag--------

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM5G864414_T02 (Zea mays), 5'ss of exon 7
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtat----acttctttctactttttgct-taatcttattgccaacactttttt--ttctctaaatcttcttccctttcatactctgtcag
|| ||  | || ||||| |||||||||||||| ||||| || ||||||||  | || | |||||  || | |||||| ||||||||||||||||    | ||| |    ||| ||| | | || |   |||    ||| | |    |  |||||  || |     ||   | | |     
TCCCTGCGAAGGATGAACCATCCAAACATTGTAAAGCTCAAAGAAGTCATAAGAGAGAGTGATACGCTGTTCTTTGTTTTTGAGTACATGgtatggacaattcatagcccttgttggtatcatttctgtgcttgtactctgtaaggttactaaagtttatgtttgttgtaattttag---

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S479_13V6.1 (Physcomitrella patens), 5'ss of exon 4
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatac----ttctttctactttttgcttaatctt----attgccaacacttttttttctctaaatcttcttcc----ctttcatactctgtcag--------------------------------------
|| || || |   ||||||||||||| ||||||||| ||||||| || ||| | ||||| |||   ||||  |||||||| ||||||||||||       | |||   |        | ||  ||    ||||   |   | | |||  |    || ||         | ||   |     | |                                       
TCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATCAGAGAAAACGATGAACTATTTTTTGTGTTCGAGTACATGgtaagtgaagtgcttcggagcacacagtgaagtttgtgcattggacatgttctgtttatttcgtatgtttgatgagaaccttagaatctgattaaacacatctgctaataagtttgttttttgattctcatag

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S173_136V6.1 (Physcomitrella patens), 5'ss of exon 4
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttctttctactttttgctt----aatcttattgccaacactt---------ttttttct----ctaaatctt---cttccctttcatactc-tgtcag------------------------
||  |  | |   |||||||||| ||||| |||||||||||||| || ||||| ||||| |||   || |  || || |||||||| |||||    || |  ||  |    |||     |||  ||  || |  | ||         ||| ||||     |||||  |   | |   | | ||| || | |||                         
TCTTTGCGGAAGCTGAATCATCCTAACATCGTGAAGCTGAAGGAGGTTATCCGTGAAAACGATGAACTGTTTTTCGTTTTTGAGTATATGgtgaggttttagcttttcacggctctagaaatggtacagcaattatttgatggtttgtttcttctgggattaaatgatggacattggtgtaatattcctttcaatattgtttgcatttaatcgtgcag

upper sequence: AT5G45430.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S34_221V6.1 (Physcomitrella patens), 5'ss of exon 3
TCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttctttctactttttgcttaatcttat-tgccaacacttttttttctctaaatcttcttccctttcat-actctgtcag-----------------------------------------------
|| ||  | |   |||| || || |||||||||||| |||||||||||||||| ||||| |||   || |  ||||| || ||||| |||||   ||  || ||      |    | || ||| ||   |     | |    | || || | ||    |   || |   ||  |                                                
TCTCTGCGAAAGTTGAAGCACCCCAACATTGTGAAGTTGAAGGAAGTCATCCGAGAAAACGATGAACTTTTTTTTGTTTTCGAGTATATGgtgagctgattgctctgggctatcaactcatatctgtagaagaaatatgcgatttatatatcctctgttgagatcagattgaaaaactaatctgtaacactttttggtgttgattcgcgtatacatgtgcag

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|86059416|gb|DR355173.1|DR355173
EST:     AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
EST: gi|116444408|gb|EG487000.1|EG487000
EST:     AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
EST: gi|116444419|gb|EG487011.1|EG487011
EST:     AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: AGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
EST: gi|124933080|gb|EL010277.1|EL010277
EST:     TTGAGTACATG                         GAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA
genomic: TTGAGTACATGgtatacttct ... actctgtcagGAGTGCAATCTTTACCAGCTTATGAAGGATCGCCCTAAGCATTTTGCAGAA