Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTTCCTGTTAAAAAGAGGAATGGCTGGGTAAGGATGATTGTTGATGCTTGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagcttgtgatcttatattcctatactccgtaagcagaaatcattttatgtttccccattatttcctgttgtattcatatgaagtgcacctgcaat...

Basic information

species Zea mays
transcript GRMZM2G155312_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G155312_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g53250.1 (Oryza sativa), 5'ss of exon 3
TTGTTCCTGTTAAAAAGAGGAATGGCTGGGTAAGGATGATTGTTGATGCTTGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtag-cagcttgtgatcttatattcctatactccgtaagcagaaatcattttatgtttccccattatttcctgttgtattcatatgaagtgcacctgcaat-----
|||||||||||| |||  |||||   |||||||||||||| || ||||| || ||||| ||||| ||||||||||||||||||||||||||||||||||||||  ||   ||||||| || | || | | ||  |  |   |   |   ||| ||| |    | | | |  |||| ||  |   |    ||    || |||     
TTGTTCCTGTTAGAAAAGGGAATACATGGGTAAGGATGATAGTGGATGCATGCTACCCAACCAATATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtaaacacactgtgatcctaaaatc-tgt-ctgtgctacatgtttttgctttgtgtgt----aatttatgttgttttaacctactatgatgtttttgtaataattt
















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|211241145|gb|FL072646.1|FL072646
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
EST: gi|211241148|gb|FL072649.1|FL072649
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
EST: gi|211241143|gb|FL072644.1|FL072644
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
EST: gi|211243384|gb|FL072664.1|FL072664
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGGGCTCGATGATGA
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGA
EST: gi|211241151|gb|FL072652.1|FL072652
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
EST: gi|211241147|gb|FL072648.1|FL072648
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGNACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGTGCTC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTC
EST: gi|211243378|gb|FL072658.1|FL072658
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGNGCTCGATGATGAGGGCTATAC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
EST: gi|211241154|gb|FL072655.1|FL072655
EST:     TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAG                         GTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC
genomic: TGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagctt ... gctatttcagGTATATACCACTCAGTCGACTTCAAATTGTGCTCGATGATGAGGGCTATAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTTCCTGTTAAAAAGAGGAATGGCTGGGTAAGGATGATTGTTGATGCTTGTTACCCCACCAACATAAAGGAAGAGACAGATCCAGAGTACTTTTGCAGgtagcagcttgtgatcttatattcctatactccgtaagcagaaatcattttatgtttccccattatttcctgttgtattcatatgaagtgcacctgcaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA