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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaattgttataccattttatggtttatgttatatatgatgagcgtcattctaggttttaaaatttctttgatgtgatttctgtag

Basic information

species Oryza sativa
transcript LOC_Os07g14270.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g14270.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G074687_T01 (Zea mays), 5'ss of exon 6
GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaattgttataccattttatggtttatgttatatatgatgagcgtcattctaggttttaaaatttctttgatgtgatttctgtag
|| || |||||||||||||||||||| ||||||||||||||||||||||||||||  || |      || |  ||| | |||  ||   ||||     ||   | ||||| | || ||||   |||||  |  || ||
GGCTATGATGATATTCCCAAGGAAATTCCTGACCCTGATGCTAAGAAGgtacttatgtggttatttgttatgcggtctgtgtcgta--ggatggataacagcatgggttt-ataaattctaaaatgtgcat--tgcag

upper sequence: LOC_Os07g14270.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G358059_T01 (Zea mays), 5'ss of exon 6
GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaattgttataccattttatggtttatgttatatatgatgagcgtcattctaggttttaaaatttctttgatgtgatttctgtag
|| || |||||||||||||||||||| ||||||||||||||||||||||||||||  || |      || | | |||| | | ||||  ||| |    |||    || | || || ||||   ||||      || ||
GGCTATGATGATATTCCCAAGGAAATTCCTGACCCTGATGCTAAGAAGgtacttatgtggttatttgttatgtagtttctatcatat--gattaataacat----gggtatataaattctaaaatgt--ccattgcag
















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|88729754|gb|CI753264.1|CI753264
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29629339|gb|CB634350.1|CB634350
EST:     AGGGATATGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGCGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: AGGGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|163920423|gb|EG710621.1|EG710621
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|33793505|gb|CF322636.1|CF322636
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGAATGGTGAGTGGACTGCACCAACCAT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGA-TGGTGAGTGGACTGCACCAACCAT
EST: gi|29658654|gb|CB654929.1|CB654929
EST:     AGGGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: AGGGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|88718533|gb|CI742043.1|CI742043
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|88722171|gb|CI745681.1|CI745681
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29675378|gb|CB671653.1|CB671653
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|88691187|gb|CI735266.1|CI735266
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|58656433|gb|CK045113.1|CK045113
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29675242|gb|CB671517.1|CB671517
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|14192066|gb|AU184277.1|AU184277
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29662654|gb|CB658929.1|CB658929
EST:     CGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: CGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29644253|gb|CB649260.1|CB649260
EST:     GGATACGATGATATTCCCAAGGAAATCCTTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|33793940|gb|CF322858.1|CF322858
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGAATGGTGAGTGGACTGCACCAACCAT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGA-TGGTGAGTGGACTGCACCAACCAT
EST: gi|58596614|gb|CK007142.1|CK007142
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGGACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|88690114|gb|CI734193.1|CI734193
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|88730078|gb|CI753693.1|CI753693
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29673077|gb|CB669352.1|CB669352
EST:     CCAAGGAAATCCCTGACCTTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: CCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|66915891|gb|CX102739.1|CX102739
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|8856749|gb|AU094067.1|AU094067
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29662655|gb|CB658930.1|CB658930
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29663170|gb|CB659445.1|CB659445
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29660493|gb|CB656768.1|CB656768
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29660220|gb|CB656495.1|CB656495
EST:     ATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: ATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|29629338|gb|CB634349.1|CB634349
EST:     GGATATGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGCGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
EST: gi|58679227|gb|CK067914.1|CK067914
EST:     GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAG                         CCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT
genomic: GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaatt ... atttctgtagCCTGAGGACTGGGATGATGAGGAAGATGGTGAGTGGACTGCACCAACCATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATACGATGATATTCCCAAGGAAATCCCTGACCCTGATGCTAAGAAGgtacttaattgttataccattttatggtttatgttatatatgatgagcgtcattctaggttttaaaatttctttgatgtgatttctgtag

- - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - AAGAAG