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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaatacaaaccttgcaacaattagattctgttctggagttatgaccactctctatctggttttacggttttag

Basic information

species Zea mays
transcript GRMZM2G107867_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaata--caaaccttgcaa-caattagatt-------ctgttctggagttatgaccactctctatctggttttacggttttag-----------------------------
||| ||||||||||| ||||| ||||| ||||||||||| |||||||| |||||||||||||||||||||||||| ||||| || |||||||| || ||||||||| || | |||||| |  ||  || |||||| || |  |||  ||         || ||  |  |||      | |   | |  || |     |||                               
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatag-atttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os08g37800.1 (Oryza sativa), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaata--caaaccttgcaacaattagattctgttctgg-agttatgaccactctctatctggttttacggttttag-------------------------------------
||| ||||||||||| ||||| ||||| ||||||||||| |||||||| ||||||||||||||||| |||||||| ||||| || |||||||| || ||||||||| |  | |||||| |  ||  || |||||  || | |   || |||    |   ||  | |  |      |  |  | |||   || |                                       
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGACGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataa-atttatgtaggctaaccagaccttataa-actcttatgctgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgcttgtttggtgttccag

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA18G49770.1 (Glycine max), 5'ss of exon 6
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgt---gagaaagcacttatgtggaat--acaaaccttgcaa-caatta--gattctgttctggagttatgaccactctctatctgg----ttttacggttttag
 || ||||| ||||| ||||| || ||| | ||||| ||||||||||| || ||||| ||||||||||| |||||||| ||||| ||||| ||||| |||||   |  ||   | || | |  | |  |  ||    |  | |   |   || |   |||     |      |  |    || |||    |||| | | |    
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATGAAAATATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatttaattttatttatttaattaattgagtgatcggctgttgactacattcaaacatcccaggccttggacatgtggataattttccagct----

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA13G05700.1 (Glycine max), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaatacaaaccttgcaacaattagattctgttctggagttatgaccactctctatctggttt--tacggttttag---------
 || ||||| ||||| ||||| || ||| | ||||||||||| ||||| |||||||| ||||||||||| || ||||||||||| ||||||||||| |||||   |     ||||  |  | ||  |   ||  |     |   |  | || |||  ||   |  |||     |    |||  |||   | | |         
AGTAGATGTCTGGAGCTGTGGTGTAATTTTATATGCTCTTCTCTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCCAATCTCTTCAAAAAAATAAAGgtactatttttcttaatttaattatta---ttatatttcctttttctttttatgggtttcaaaggactgatagttaaatttcctaccactgtcgtgtcaaatt

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtga-gaaagcacttatgtggaatacaaaccttgc--aacaattagattctgttctggagt-tatgaccactctcta---tctggttttacggttttag-
 || ||||| ||||| ||||| || ||| | ||||| ||||||||||| |||||||| ||||||||||| || ||||| ||||| ||||| ||||| |||||   |  |    | || |    ||   |  |  |  |   || || |  |||       | ||| |  |||  | |     |||   || || |     
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT5G39440.1 (Arabidopsis thaliana), 5'ss of exon 4
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtg--agaaagcacttatgtggaatacaaaccttgcaacaattagattctgttctggagttatgaccactctctatctggttttacggttttag
 || ||| |||||||||||||||||||  | ||||||||  | ||||| |||||||| || ||||| || |||||||| ||| | ||| | ||||| |||||   |  || ||   || |    || |||  |   |   |||| |    ||| || | || |   | || | | | | |              
TGTAGATATATGGAGTTGTGGGGTGATATTATATGCTCTGTTGTGTGGTACTCTTCCTTTCGATGACGAAAATATTCCTAATGTATTCGAGAAAATAAAGgtattaataaacaacgatctttt-tataaaaatcatatatattacacatggttatgaattttt--tctctatttctttag--------------

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT3G29160.3 (Arabidopsis thaliana), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaa----gcacttatgtggaa-tacaaaccttgcaacaattagattc-tgttctggagttatgaccactctctatctggttttacggttttag
 || |||||||||||||| || || ||  | || |||||  | || || |||||||| ||||||||||| || |||||||| || ||||| |||||||||||     |      ||||   |  |  || ||  ||      || | ||||| | |    | |   | ||   ||    | |  |||| |   |||||
AGTAGATGTATGGAGTTGCGGAGTTATATTGTACGCTCTATTATGCGGTACTCTTCCTTTTGATGATGAAAACATTCCCAACCTTTTCAAGAAAATTAAGgtactgtacgttatactttgattcagctaaaagactcttcttaaatggattcatatgtatgtgaagtaacttatcaaggtgttttttttct-ctttag

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaa-----agcacttatgtggaatacaaaccttgcaacaattagattctgttctggagttatg--accactctctatctg--gttttacggttttag---------------
 || ||||| ||||| ||||| ||||| || || |||||||| ||||| || ||||||||||||||||| || |||||||| || || || || || |||||          |   ||  | |    |  |        ||   ||  ||| | |  |  | || |   | ||| ||    |||     ||    ||||                 
AGTAGATGTCTGGAGCTGTGGTGTGATACTCTACGCTCTTCTCTGTGGGACGCTTCCATTTGATGATGAAAACATTCCCAACCTTTTTAAGAAGATAAAGgtacattctattactcctcctctttcgtctatttgaactaatgcttgaattttttattttatttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatag

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 5'ss of exon 5
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtga----gaaagcacttatgtggaatacaaaccttgcaa---caattagattc-tgttctggagttatgaccactctctatctggttttacggttttag
||| ||||||||||| || || || ||| | || |||||||||||||| |||||||||||||||||||| || |||||||| || ||||| ||||| |||||       ||   ||||   |    |  |     ||| |    |  | |||     ||      || || ||  |  || | |  ||||  | ||  | 
GGTGGATGTATGGAGCTGCGGTGTTATTTTGTACGCTCTTCTTTGTGGTACTCTTCCATTTGATGATGAAAACATTCCCAACCTTTTCAAGAAAATAAAGgtatttctaaatttacttcactaacttttagcatgtgccagcttagctggatctgcattgctcttttttgtccttttactttttatttttttgtttagaa

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: EFJ16445 (Selaginella moellendorffii), 5'ss of exon 4
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaatacaaaccttgcaacaattagattctgttctggagttatgaccactctctatctggttttacggttttag
 || || |||||||| ||||||||||| || || || ||||| ||||| |  ||||| ||||| || || || ||||| ||||| ||||| ||||| |||||||   | || | |     || |  ||   |  ||   ||   |||| |||| |  ||||  |||                          
AGTAGACGTATGGAGCTGTGGGGTGATACTATACGCACTTCTCTGTGGCAGCCTTCCCTTTGACGACGAAAACATTCCAAATCTATTCAAGAAAATCAAGgtga---atcagtcagac--aacaagaagtcttaaatgtttt--ttcttttcttgt-ttattcccag-------------------------

upper sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
lower sequence: EFJ17922 (Selaginella moellendorffii), 5'ss of exon 4
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaatacaaaccttgcaacaattagattctgttctggagttatgaccactctctatctggttttacggttttag
 || || |||||||| ||||||||||| || || || ||||| ||||| |  ||||| ||||| || || || ||||| ||||| ||||| ||||| |||||||   | || | |     || |  ||   |  ||   ||   || | |||| |  ||||  |||                          
AGTAGACGTATGGAGCTGTGGGGTGATACTATACGCACTTCTCTGTGGCAGCCTTCCCTTTGACGACGAAAACATTCCAAATCTATTCAAGAAAATCAAGgtga---atcagtcagac--aacaagaagtcttaaatgttt---tttttttcttgt-ttattcccag-------------------------

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|60359581|gb|DN226554.1|DN226554
EST:     CTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCNNNNNNNTTAAG                         GGAGGTATCTACACACTTCCAAGT
genomic: CTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagc ... acggttttagGGAGGTATCTACACACTTCCAAGT
EST: gi|32930411|gb|CF035223.1|CF035223
EST:     TCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCNNNNNNNTTAAG                         GGAGGTATCTACACACTTCCAAGTCATTTGTCTGCTTTGGCCAGGGATTTG
genomic: TCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagc ... acggttttagGGAGGTATCTACACACTTCCAAGTCATTTGTCTGCTTTGGCCAGGGATTTG
EST: gi|71437399|gb|DR818449.1|DR818449
EST:     CTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCNNNNNNNTTAAG                         GGAGGTATCTACACACTTCCAAGTCATTTGTCTGCTTTGGCCAGGGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagc ... acggttttagGGAGGTATCTACACACTTCCAAGTCATTTGTCTGCTTTGGCCAGGGATTTG
EST: gi|211440538|gb|FL230375.1|FL230375
EST:     CTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCNNNNNNNTTAAG                         GGAGGTATCTACACACTTCCAAGTCATTTGTCTGCTTTGGCCAGGGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagc ... acggttttagGGAGGTATCTACACACTTCCAAGTCATTTGTCTGCTTTGGCCAGGGATTTG