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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttggttctggcgattctgttggtgctttggttctccctagtttagtaggatgctatgatgcgaatttttctttgtatctggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTACCTTCAAGTAGCCACACT

Basic information

species Zea mays
transcript GRMZM2G082855_T05
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G082855_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g03970.1 (Oryza sativa), 3'ss of exon 8
gtatgttggttctggcgattctgttggtgctttggttctccctagtttagtaggatgctatgatgcgaatttttctttgtatctggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTACCTTCAAGTAGCCACACT
|||||||  | ||   ||||    |  |  ||  ||  ||   |||||     ||  | || |||||| ||| |     ||| ||   |||||||| ||||| || ||||||||||||||||||||||| ||||||||||| |  |||||||||||||||||
gtatgttcttgctaa-gatttcagtaatatttcagtgttcatgagtttca---gacaccataatgcgagtttct-----tatttgtattgcagGGACATTTCGTATAACCAAATCTCTGGAGAAATACCTTACAACATAGGCTTTCTTCAAGTAGCCACACT
















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|86472326|gb|DY238696.1|DY238696
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|148934014|gb|EC878019.2|EC878019
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|148940443|gb|EC885241.2|EC885241
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|149079906|gb|EE168912.2|EE168912
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|148964982|gb|EC906062.2|EC906062
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|148941048|gb|EC885905.2|EC885905
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|101383199|gb|EB813654.1|EB813654
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
EST: gi|148957491|gb|EC903572.2|EC903572
EST:     ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCT                         GGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA
genomic: ACAGGAACAATTCCAGAGGGCATAGGGAACTGCACTAGCTTTGAGATTCTgtatgttggt ... tggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccctagtttagtaggatgctatgatgcgaatttttctttgtatctggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTACCTTCAAGTAGCCACACT
                               tttttctttgtatct  CT-rich tract
                             aatttttctttgtat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttggttctggcgattctgttggtgctttggttctccctagtttagtaggatgctatgatgcgaatttttctttgtatctggcatgcagGGATATTTCATACAACCAAATCTCTGGAGAAATACCATACAACATAGGTTACCTTCAAGTAGCCACACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA