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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGCAGTATCGTATGTCAAATTCTTATCTAACAATGAGCTTGCATCTGCATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgctctttctgagatactccctccgtcctaaattaaaattcgttttatctttttagtagattcatacaataattaatatatgtgttctatattatat...

Basic information

species Zea mays
transcript GRMZM2G126795_T01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 5'ss of exon 11
GAAAGCAGTATCGTATGTCAAATTCTTATCTAACAATGAGCTTGCATCTGCATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgctctttctgagatactccctccgtcctaa--attaaaattcgtttt-atctttttagtagat-tcatacaataattaatatatgtgttctatattatat
|||||| || || ||||| || ||| | || | |||||||||||| ||||||||||| |||||||| ||||| |||||||||||||| || ||||  || ||||| | |   ||||||  | | | |     ||  || ||| |  |||||   ||||| || || | | |   | || | || |    |||| ||   ||   
GAAAGCTGTTTCTTATGTGAAGTTCCTGTCCACCAATGAGCTTGCGTCTGCATCAACTGATAGCACATTACGGTTATGGGATGTCAAAGAAAATTGCCCTgtatg-tgtcattgagatttttcttgcactgcaattatgaaattatgtttttgccttttaagcagctatgacttattagtaaaaagtgatgttttaggata---

upper sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 13
lower sequence: AT2G32950.1 (Arabidopsis thaliana), 5'ss of exon 11
GAAAGCAGTATCGTATGTCAAATTCTTATCTAACAATGAGCTTGCATCTGCATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgct--ctttctgagatactccc------tccgtcctaaattaaaattcgttttatctttttagtagattcatacaataattaatatatgtgttctatattatat
||||||||| || ||||| ||||| || || ||||| ||||| || ||||| || |||||||||||  |||| |||||||||||||| || || ||||| ||  | |  ||  | |||  | ||        || |||  |||  |||| | || ||  || | | ||  | |  |||  |  | |                      
GAAAGCAGTTTCCTATGTTAAATTTTTGTCCAACAACGAGCTCGCTTCTGCGTCCACAGATAGCACACTACGCTTATGGGATGTCAAAGACAACTTGCCAgttagattactgcccgagccaatcttgcagattcagtcaaaaagaaaaacttgtcttgactatgttgttcaattttacttt--tcag---------------------

upper sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 13
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 5'ss of exon 11
GAAAGCAGTATCGTATGTCAAATTCTTATCTAACAATGAGCTTGCATCTGCATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgctctttct-gagatactccctccgtcctaaattaaaattcg---ttttatctttttagtagattcatacaataattaatatatgtgttctatattatat
|||||| || || ||||| |||||||| || ||||||||||| || ||||| || ||||| ||||| ||  | || |||||||| ||||| |||||||| ||| |     ||| || ||| |   |  ||      ||| ||||     ||||| |    |  |   ||||||   ||  |    || |  |   |  |     
GAAAGCTGTTTCATATGTGAAATTCTTGTCAAACAATGAGCTCGCTTCTGCTTCTACAGACAGCACATTGAGGTTGTGGGATGTGAAGGAAAATTTGCCAgtaagtaaagtctagatatagttttttggtttcttcttacaattatggcttttaaccacattatgctttcataacttaggtttcctaagaatgagaagtc----

upper sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 13
lower sequence: Vv10s0523g00030.t01 (Vitis vinifera), 5'ss of exon 11
GAAAGCAGTATCGTATGTCAAATTCTTATCTAACAATGAGCTTGCATCTGCATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgctctt---tctgagatactccctccgtcctaaattaaaattc--gttttatctttttagtagattcatacaataattaatatatgtgttctatattatat---------------------------------------------------------------------------
 ||||| || |||||||| |||||||||||||||||||| ||||| || ||||| || || ||||| || || || ||||| || ||||| ||| |||| ||| | | ||   | |    |  |   |  || |||       |||     |   ||| | | ||     |   ||||  ||    || ||   | ||    | |                                                                           
AAAAGCTGTTTCGTATGTGAAATTCTTATCTAACAATGAACTTGCTTCCGCATCCACTGACAGCACATTGCGATTGTGGGACGTAAAGGAAAATATGCCTgtaagttattatgtttttattgtttattttgttctatccccgcattataaatccctctgtatggtgatacctgccaatttttttagtacgttgaccatccatttttgcaaaatcttgtggaaattacatatggtacgaacaactaattcatctcaattcctttttcataatttttcttag

upper sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 13
lower sequence: PP1S264_64V6.1 (Physcomitrella patens), 5'ss of exon 12
GAAAGCAGTATCGTATGTCAAATTCTTATCTAACAATGAGCTTGCATCTGCATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgta-----tgctctttctgagatactccctccgtcctaaattaaaattcgttttatctttttagtagattcatacaataat-taatatatgtgttctatattatat
 ||||| || || ||||||||||||||||||   || ||| | |||||||||||||| || ||||| || ||| | ||||||||||||   || |   |||||     |||| ||| |||  |  |   |   | ||   ||    |  | |||    ||  |  | | || ||  || || ||   |    |||  | |  |   
TAAAGCTGTTTCTTATGTCAAATTCTTATCTTCAAACGAGTTGGCATCTGCATCAACCGACAGCACTTTGCGTCTTTGGGATGTCAAGTCGAACTGCGCGgtaggtcttgctgtttatgaagtcatgtttatttacttgcttc--gtaagatttggtcttagaagacaatc-tatgatgatgtatcctgaaagtttcaaagga---

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|149104054|gb|EE289486.2|EE289486
EST:     CATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCG                         GTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCT
genomic: CATCAACAGATAGCACGTTACGTTTATGGGATGTCAAGGATAATTTGCCGgtatgctctt ... ttttttccagGTACGGACATTCAGAGGGCACAAAAATGAAAAGAACTTCGTTGGATTGTCT