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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCGCTGTGTTTCATAATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctttggccatctgtttttaattcttatcgatttatatcatgaaaacagttaggctttacatgtgaagatcatttatttgaactctttgcgcgc...

Basic information

species Zea mays
transcript GRMZM2G028535_T01
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028535_T02 (Zea mays), 5'ss of exon 18
lower sequence: LOC_Os01g62900.1 (Oryza sativa), 5'ss of exon 18
TGCCGCTGTGTTTCATAATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctttggcc----atctgtttttaattc-----------ttatcgatttatatcatgaaaacagtta--ggctttacatgtgaagatcatttatttgaactctttgcgcgc---------------------------------
||| || || || ||||||||||||||| |||| ||||||||| | || ||||| |||||||||||||||  | ||||        |||  ||| ||| |            ||| | | ||||   |  |||| |||||  |    || ||||    |  ||| | | |    | || |   |                                 
TGCTGCGGTATTCCATAATGCAAGCACACGGTTCTGTGATGGGGCTCGCTTTGGTCTAGGTGCTGAGgtatgtcctttaaatttgtatcactttataacttggacattttcgttaactagttatcaaaaaaaaatagttatcgaaaatatatgttgttactattgaatggtcagcgtttcattcagtcccctattttctttcctttatcaaatatag

upper sequence: GRMZM2G028535_T02 (Zea mays), 5'ss of exon 18
lower sequence: Vv13s0019g02360.t01 (Vitis vinifera), 5'ss of exon 18
TGCCGCTGTGTTTCATAATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctttggccatctgtttttaattcttatcgatttatatcatgaaaacagttaggctttacatgtgaagatcatttatttgaactctttgcgcgc
||| ||||| ||||| ||||| |||||||| |||||||||||| | |||||||| || || || ||||||  |  ||     | |    |||| |    ||  ||  || |  |  |     |||  | | |    ||    |||||| | | ||  ||        
TGCTGCTGTCTTTCACAATGCTAGCACAAGATTTTGTGATGGGGCTCGTTTTGGACTTGGGGCCGAGgta--tgtttcaattacc-acgtttattggacattaatccatgtggttgaggtccttacccctga----tggttttcatttttcttaatgctgaatag--

upper sequence: GRMZM2G028535_T02 (Zea mays), 5'ss of exon 18
lower sequence: PP1S22_40V6.2 (Physcomitrella patens), 5'ss of exon 18
TGCCGCTGTGTTTCATAATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctttggccatctgtttttaattcttatcgatt-tatatcatgaaaacagttaggcttta-catgtgaagatcatttatttgaactctttgcgcgc
||||||||| ||||||||||| || ||  | |||| ||||||  | ||||||||||| ||||||||||| | |    |      ||   |  | |  |  | ||   | || | |   |    |||  | |   ||||  | |    | || ||    | | |      
TGCCGCTGTATTTCATAATGCCAGTACCCGCTTTTCTGATGGTGCTCGTTTTGGGCTTGGTGCTGAGgtgcgtatacttctttcctacgtgcattgatggtggaacatgtaactttcgactttttatacctcctcatggcatggctgtgtaatttttttttcttatt--

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|60344250|gb|DN211223.1|DN211223
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|67017479|gb|CO446228.1|CO446228
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|6564250|gb|AW231872.1|AW231872
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|6022040|gb|AW066983.1|AW066983
EST:     ATGCAAGCNCAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|211181079|gb|FL441227.1|FL441227
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|60355192|gb|DN222165.1|DN222165
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|101391685|gb|EB817779.1|EB817779
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGCCCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|6564119|gb|AW231741.1|AW231741
EST:     ATGCAAGCCCAAGGTTTTGTGATGGGACGCGTTTTGGGTTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|149066719|gb|EE286860.2|EE286860
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|211181077|gb|FL441225.1|FL441225
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
EST: gi|61118748|gb|DN559709.1|DN559709
EST:     ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAG                         GTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT
genomic: ATGCAAGCACAAGGTTTTGTGATGGGACGCGTTTTGGGCTAGGTGCTGAGgtactttctt ... gtttgcgaagGTTGGCATAAGTACAGAGCGCATACATGCCCGCGGACCTGTTGGAGTTGAT