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

GTCTTGGAGCAAATTCTTGCTGTGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattctcatattctgttctctggttgaacttcttcaaagtaaacatgtcacattttcatactgttagtattattagtcgaagtgtttaacatgtctcattgtctaacag

Basic information

species Zea mays
transcript GRMZM2G068277_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G068277_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g02690.1 (Oryza sativa), 5'ss of exon 8
GTCTTGGAGCAAATTCTTGCTGTGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattctcatattctgttctctggttgaacttcttcaaagtaaacatgtcacattttcatactgttagtattattagtcgaagtgtttaacatgtctcattgtctaacag
||| ||||||||||||||||||| ||||||||||| |||||||||||||||||||| |||||||| |||| ||||||| |||||||||||  |  | || |    ||||||  ||   ||||||     ||||||     ||  |||  ||| ||    |  ||    |   |  | | |||| ||
GTCCTGGAGCAAATTCTTGCTGTACTTATACAGTTCGTTAAAGACAAGAAATTGGAACATCAGCATCAATATgtaagctttctcatattcc-tattatgatgctgcttctttgaa---aacatggagtgttttcagt---ttcatatagttaatcctcctactttgtct---ttgtgggctaatag
















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|60400409|gb|DN233216.1|DN233216
EST:     TCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|71428336|gb|DR809386.1|DR809386
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|60401584|gb|DN234391.1|DN234391
EST:     TACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|71443221|gb|DR824271.1|DR824271
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|211426623|gb|FL412861.1|FL412861
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|5895704|gb|AW036950.1|AW036950
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|110488821|gb|EE012728.1|EE012728
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|45568053|gb|CK985878.1|CK985878
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|148948940|gb|EC894359.2|EC894359
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|110504829|gb|EE017437.1|EE017437
EST:     GCTTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: GC-TTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|60347346|gb|DN214319.1|DN214319
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|50324448|gb|CO519574.1|CO519574
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
EST: gi|74237081|gb|DT644995.1|DT644995
EST:     TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTT                         GATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT
genomic: TGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattc ... tgtctaacagGATGATCTGAAGAAGACCTGGCTTATCAAAAGGTGTCGGACAATGAATGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTTGGAGCAAATTCTTGCTGTGCTTATACAGTTTGTTAAAGACAAGAAATTGGAGCATCAGCACCAATTTgtaagcattctcatattctgttctctggttgaacttcttcaaagtaaacatgtcacattttcatactgttagtattattagtcgaagtgtttaacatgtctcattgtctaacag

- - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA