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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggcagaaatgacctgaaactttaaatctacatagcatggagttcagattgacaattgatgcatgccaagcatcctgttggctgga...

Basic information

species Zea mays
transcript GRMZM2G006428_T01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagt-attgaatgtggcagaaatgacctgaa----actttaaatct-acatagcatggagttcagattgacaattgatgcatgccaagcatcctgttggctgga---------------------
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||||| ||||  |     | || | |||||||     | ||   | | |||||    | |    |||||  ||||  || |     ||| |   |  ||| |                        
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACACTATTATGAACGGTGGGCAGCCAATCAGTCGgtaagttattgggtacaagaaaagttacctgaacaaagcattgtgttttacataagtagtaaaaaagatttccaatcaatactcaagaagaacttttctggtttcttaatatcttctcgttatgcag

upper sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 10
lower sequence: AT1G65430.1 (Arabidopsis thaliana), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagta----ttgaatgtggcagaaatgacctgaaac-tttaaatctacatagcatggagttcagattgacaattgatgcatgccaagcatcctgttggctgga
||||||||  ||||||   |  |||| |||||||||||||| |||||||||||||| || || |||||  |||||||| ||||||| |||||| |||    || |       |||| | || ||     ||||  ||  | |     |||  |   |   | ||||       | |||   || | ||       
TATGATGAGACTGAAAAACGCCGAGAGATGGCAAAGAACTCTCTTGAGAGATATACCCACTACTATGAGAGATGGGCAACCAATCAATCGgtatgtaaatttttatccatttagaattcacatgttttatttagctcctcttgaaggggaaatttaagaaagaattttcagccgtcaaat-tcatattcct----

upper sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 10
lower sequence: Vv00s0207g00090.t01 (Vitis vinifera), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatgtggcagaaatgac-ctgaaactttaa-atctacatagcatggagttcagattgacaattgatgcatgccaagcatcctgttggctgga
||||||||  |||| |   |||| || ||||| ||||||||  | ||||||||||| ||||||||||||||||||||  |||| || || ||| || |||| | |  ||||     | ||    || ||| ||  ||||    |      |  |||        ||  |  |||||  |    |    ||  
TATGATGAGGCTGAGAAACGAAGGGATATGGCTAAGAACTCTTTGGAGAGATATACTCATTATTATGAACGATGGGCGACCAACCAATCTgtatgt-ttgacttttccagatcctcctcttttgctgtaatatggacattatttcagaaacccattatttcagaatttagtccaagattgtcctcatttgc-

upper sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 10
lower sequence: PP1S114_2V6.1 (Physcomitrella patens), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattgaatg--tggcagaaatgacctgaaactttaaatctacatagcatggagttcagattgacaattgatgcatg----ccaagcatcctgttggctgga-------------------------------------------------------
||||||||| | ||  ||||||| |||||||| ||||||||||||||  | ||||||||||| |||||||| |||||  | ||  | || ||||||  || |      ||| |  |  ||       |||  | | | |    | |   |  ||||| ||  |  ||  |     |  | |   || |    |  |                                                       
TATGATGAAGCAGAGCGGAGAAGGGAAATGGCTAAGAACTCGCTTGAACGCTATACACATTACTATGAACGTTGGGCTACAAACGAATCTgtaagtggtgcagaatctgcacattttcccatctgaattaggttttcctcagttcgccatgggattg-cacctattgtttaggatcttaactctctctcaatttaaagacgtgatctgcgtttgtgttttcttgacttttgaaatctcctttgtttttcag

upper sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 10
lower sequence: EFJ15174 (Selaginella moellendorffii), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgt-aagtattgaatgtggcagaaatgacctgaaactttaaatctacatagcatggagttcagattgacaattgatgcatgccaagcatcctgttggctgga
|| |||||| |||| ||||| ||||||||||| ||||||||| | ||||||||||||||||| || || ||||||||  | ||  | || ||  ||| |  ||| ||    |  |||   |    | ||| |      |   |  ||                                            
TACGATGAAGCTGAGAGGAGGAGAGAAATGGCTAAGAACTCGTTAGAGAGATATACACATTACTACGAGCGATGGGCCACGAACGAATCAgttgagtttccaatttga-gtatctgataggcctttctaacttcgttcatggtacag--------------------------------------------

upper sequence: GRMZM2G006428_T02 (Zea mays), 5'ss of exon 10
lower sequence: EFJ08409 (Selaginella moellendorffii), 5'ss of exon 10
TATGATGAATCTGAAAGGAGAAGAGAAATGGCAAAGAACTCGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgt-aagtattgaatgtggcagaaatgacctgaaactttaaatctacatagcatggagttcagattgacaattgatgcatgccaagcatcctgttggctgga
|| |||||| |||| ||||| || |||||||| ||||||||| | ||||||||||||||||| || || ||||||||  | ||  | || ||  ||| |  ||| ||    |  |||   |    | ||| |   |  |   |  ||                                            
TACGATGAAGCTGAGAGGAGGAGGGAAATGGCTAAGAACTCGTTAGAGAGATATACACATTACTACGAGCGATGGGCCACGAACGAATCAgttgagtttccaatttga-gtatctgataggcctttctaacttcgctcatggtacag--------------------------------------------

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|211198902|gb|FL376281.1|FL376281
EST:     TTATGAACGATGGGCAGCCAATCAGTCG                         TCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAACGACAAG
genomic: TTATGAACGATGGGCAGCCAATCAGTCGgtaagtattg ... catggcgcagTCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAACGACAAG
EST: gi|76281609|gb|DV021177.1|DV021177
EST:     CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCG                         TCGAGGCAAA-GGCACTGGGG
genomic: CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattg ... catggcgcagTCGAGGCAAAAGGCACTGGGG
EST: gi|211292139|gb|FL375498.1|FL375498
EST:     CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCG                         TCGAGGCAAAAGGCACTGGNGGGACCTTCAAAGCCTACAGAACGACAAG
genomic: CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattg ... catggcgcagTCGAGGCAAAAGGCACTGG-GGGACCTTCAAAGCCTACAGAACGACAAG
EST: gi|22521335|gb|BU080146.1|BU080146
EST:     CCCTTGAGAGATACACACATTATTATGAACGATGGGCAGCCAATCAGTCG                         TCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAATGACAAG
genomic: CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattg ... catggcgcagTCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAACGACAAG
EST: gi|78080365|gb|DV508777.1|DV508777
EST:     CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCG                         TCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAACGACAAG
genomic: CGCTTGAGAGATATACACATTATTATGAACGATGGGCAGCCAATCAGTCGgtaagtattg ... catggcgcagTCGAGGCAAAAGGCACTGGGGGACCTTCAAAGCCTACAGAACGACAAG