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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggttgaagtgacctgaaacttcaaatctacattagcatggagttcattcagagtgacaattgatgcatgccagctgttctgttgg...

Basic information

species Zea mays
transcript GRMZM5G876621_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagt-attgaatgtggttgaagtgacctgaaacttcaaatctacattagcatggagttcattcagagtgacaattgatgcatgccagctgttctgttgg--------------------------
||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||| ||||||||||| |||||||||||||||||||||||| ||||  |       |||| |||||||      | | |   |||     |   | |   ||| |  ||||  || |     |     | |  |||                          
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACACTATTATGAACGGTGGGCAGCCAATCAGTCGgtaagttattgggtacaagaaaagttacctgaacaaagcattgtgttttacataagtagtaaaaaagatttccaatcaatactcaagaagaacttttctggtttcttaatatcttctcgttatgcag

upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagta---ttgaatgtggtt-gaagtgacctgaaacttcaaatctacattagcatggagttcattcagagtgacaattgatgcatgccagctgttctgttgg
||||||||  ||||||   |  |||| |||||||||||||| ||||||||||| || || || |||||  |||||||| ||||||| |||||| |||   ||  ||    || ||| | || ||     |  |       ||     |||  |  || |||  ||   || |  | |   |    |  |  |  
TATGATGAGACTGAAAAACGCCGAGAGATGGCAAAGAACTCTCTTGAGAGATATACCCACTACTATGAGAGATGGGCAACCAATCAATCGgtatgtaaatttttatccatttagaattcacatgttttatttagctcctcttgaaggggaaat--ttaagaaagaattttcagccgtcaaattcatattcct--

upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggttgaagtgac-ctgaaacttcaa-atctacattagcatggagttcattcagagtgacaattgatgcatgccagctgttctgttgg
||||||||  |||| |   |||| || ||||| ||||||||  | |||||||| || ||||||||||||||||||||  |||| || || ||| || |||| | |    ||     | ||    ||  || ||  ||||||     ||   |  | |       | ||  | || |   | |  ||  ||| 
TATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCTgtatgt-ttgacttttccagatcctcctcttttgctgtaatatggacattatttcagaaacccattatttcagaatttagtccaagattg-tcctcatttgc

upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: PP1S9_199V6.1 (Physcomitrella patens), 5'ss of exon 11
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggttgaagtgacctgaaacttcaaatctacattagc---atggagttcattcagagtgacaattgatgcatgccagctgttctgttgg---------------------------------------------------------
||||||||| | ||  ||||||| |||||||| ||||||||||||||  | |||||||| |||||||| || |||||  | ||  | || || |||| | |      ||||  ||        |||| |  |||| ||||    ||    ||  | |      ||| | ||          ||     |||                                                           
TATGATGAAGCAGAGCGGAGAAGGGAAATGGCGAAGAACTCCCTTGAACGTTACACACACTATTATGAGCGTTGGGCTACAAACGAATCTgtgagtactaa-----tttgagatggtgcacttcttcca--ctacgttagttatataatctttttcccataacacactagagatgcattgactacctggttaatttaatgtgatgtttttcatcatttcaatcttactcaaatccttctgatgtgtgcag

upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: PP1S178_72V6.2 (Physcomitrella patens), 5'ss of exon 11
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggttgaagtgacctgaaactt------------caaatctacattagca---tggagttcattcagagtgacaa-ttgatgc-atgccagctgt-tctgttgg-----------------------------------
|| |||||| | ||  |||| || |||||||| |||||||| |||||  | ||||||||||| |||||||| |||||  | ||| |||| ||||||  || ||   |||   |     |     ||              ||||| ||| | |    | |  ||    ||   |   || |||| |  |||    |||  | ||||                                     
TACGATGAAGCAGAGCGGAGGAGGGAAATGGCTAAGAACTCTCTTGAACGCTACACACATTACTATGAACGTTGGGCTACAAATGAGTCTgtaagtgctggattgcgtttgtgcattttttcttttgtcattcggtaatgaatctgcatgaactgtttaggattttgacatcatcctaacttgaggagatgtggtctgcatttgtttattcttgactatcgagagtttggtggtgttgtgcag

upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: PP1S156_28V6.1 (Physcomitrella patens), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggttgaagtga----cctgaaacttcaaat---ctacattagcatggagttcattcagagtgacaattga---tgcatgcca-gctgttctgttgg-------------------------------------------
||||||||| | ||  |||| || || ||||| ||||||||||||||  | |||||||||||||||||||| |||||| | ||| | || || |||   |  |   |||     ||     ||   || | || |   ||   ||  |    | | ||   | | |||| ||  |   |  | || | | |||  |||  |                                           
TATGATGAAGCAGAGCGGAGGAGGGAGATGGCTAAGAACTCCCTTGAACGTTACACACATTATTATGAACGCTGGGCAACGAATGAATCTgtgagtgccggtttgagtttgcacgagttttcttctaccttaattgcgctgtcttttctcacactgcagatacattgactatgtaaattttaggcaatgatgtagtgtgagcttatatttatcatttctgttctaatttcttttatgtgtgcag

upper sequence: GRMZM5G876621_T01 (Zea mays), 5'ss of exon 10
lower sequence: EFJ15174 (Selaginella moellendorffii), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgt-aagtattgaatgtggttgaagtgacctgaaacttcaaatctacattagcatggagttcattcagagtgacaattgatgcatgccagctgttctgttgg
|| |||||| |||| ||||| ||||||||||| ||||||||  | |||||||| |||||||| || || ||||||||  | ||  | || ||  ||| |  ||| ||  | |  |||   |    ||| ||  |   | |   |  ||                                           
TACGATGAAGCTGAGAGGAGGAGAGAAATGGCTAAGAACTCGTTAGAGAGATATACACATTACTACGAGCGATGGGCCACGAACGAATCAgttgagtttccaatttgagt-atctgata-ggcctttctaacttcgttcatggtacag-------------------------------------------

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|87155958|gb|DY400747.1|DY400747
EST:     CCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCG                         TCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAATGACAAG
genomic: CCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattg ... catggcgcagTCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAATGACAAG