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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagtttcttgcttcgatgcactccgcaaatcacttgcatcattcagacatgacatccaacctgttgatgttcttttcgtgaaccactagaaatgcttgctagtatttattcctggcaaatcgtctatgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAGGTACGTGCCGCTGATCCCGTGCTTGAAACTGACCTCCCGGAAGGGCACG

Basic information

species Zea mays
transcript GRMZM2G066923_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G066923_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os07g37100.2 (Oryza sativa), 3'ss of exon 7
gtgaagtttcttgctt-cgatgcactccgcaaatcacttgcat-cattcagacatgacatccaacctgttgatgttcttttcgtgaaccactagaaatgcttgcta--gtatttattcctggcaaatcgtctatgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAGGTACGTGCCGCTGATCCCGTGCTTGAAACTGACCTCCCGGAAGGGCACG
||    | |||| ||| | || || |     || |||||   | |||  | |||      |       |  |      | | |||      |  |||| | |   |     |  ||||||| ||||           ||||||||||||| |   ||| || ||||||||||| |||||||| ||||| ||||||||| |||| ||||||  |||| | || |||||||||||||||||    
gtatcttatcttactttctatccattttctcaagcacttagttgcatgtaaacacatgtactgtagcttccactaaaatctagtgctgttgtgcaaatacctcacatgccgtccattcctgacaaa----------atttcagGTACGCGTTGACGCTCATTGCGATGTACAATGTGTGGGATCTGATTGGGAGGTACCTGCCACTGATCAAGTGCATCAAGCTGACCTCCCGGAAGGGTCTC
















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|211262119|gb|FL420558.1|FL420558
EST:     TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATG                         GTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
genomic: TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATGgtgaagtttc ... tgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
EST: gi|78091895|gb|DV520269.1|DV520269
EST:     TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATG                         GTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
genomic: TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATGgtgaagtttc ... tgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
EST: gi|31352004|gb|CD436361.1|CD436361
EST:     TTCCCAGGATTTTTGTCTGAAGACACTGGAGCACACAGCCTGGGAACATG                         GTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
genomic: TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATGgtgaagtttc ... tgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
EST: gi|71765298|gb|DR963235.1|DR963235
EST:     TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATG                         GTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
genomic: TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATGgtgaagtttc ... tgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
EST: gi|91872380|gb|EB402337.1|EB402337
EST:     TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATG                         GTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
genomic: TTCCCAGGATTTTTGTCTGAAGACACCGGAGCACACAACCTGGGAACATGgtgaagtttc ... tgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG
EST: gi|211241961|gb|FL454434.1|FL454434
EST:     GGAGCACACAGCCTGGGAACATG                         GTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGCACCTGATCGGGAG
genomic: GGAGCACACAACCTGGGAACATGgtgaagtttc ... tgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accactagaaatgcttgctagtatttattcctggcaaatcgtctatgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAGGTACGTGCCGCTGATCCCGTGCTTGAAACTGACCTCCCGGAAGGGCACG
                  tagtatttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaagtttcttgcttcgatgcactccgcaaatcacttgcatcattcagacatgacatccaacctgttgatgttcttttcgtgaaccactagaaatgcttgctagtatttattcctggcaaatcgtctatgtgtttcagGTACGCGCTTGTGCTGATCGCGATGTACAACGTGTGGGACCTGATCGGGAGGTACGTGCCGCTGATCCCGTGCTTGAAACTGACCTCCCGGAAGGGCACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT