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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttacaaaatactgcttcatttaaatggaattttatgattattgaaatgctatactaatcttcctttatcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGATGAATTTCTAGAACTGGTTGCAAGTGTATCAGATATTAGGCATCCCAACA

Basic information

species Oryza sativa
transcript LOC_Os02g07960.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g07960.3 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G020986_T01 (Zea mays), 3'ss of exon 12
gtatgtttacaaaatactgcttcatttaaatggaattttatgattattgaaatgctatactaatcttcctttatcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGATGAATTTCTAGAACTGGTTGCAAGTGTATCAGATATTAGGCATCCCAACA
   | | ||  ||  | |||||| |||||   |    | ||   |  ||||||  ||   | ||||||  || || |||||||||  |||||||||||||||||||||| || ||||  |||||||| |||||||| ||||||||  |||||||  || ||||||||||||| || || ||||
--gtatgtatcaagcattgcttcttttaatcagcgagtgatttatgctgaaata-taaggtcatcttctcttgtcatatgcagTTACTGGAAGTTATGAAGATTGATAATGCTAATGGAAGAATACCAGTAGATGACTTTCTAGAGTTGGTTGCTTGTATATCAGATATTAGACACCCTAACA

upper sequence: LOC_Os02g07960.3 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G335638_T01 (Zea mays), 3'ss of exon 12
gtatgtttacaaaatactgcttcatttaaatggaattttatgattattgaaatgctatactaatcttcctttatcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGATGAATTTCTAGAACTGGTTGCAAGTGTATCAGATATTAGGCATCCCAACA
   | | ||  || || |||||| ||||    |   |   |||||          |||||| |   |  ||| ||||||||||||  |||||||||||||||||||||| || ||||  |||||||| |||||||| ||||||||  |||||||  || ||||||||||||| || || ||||
--gtatgtatcaagtattgcttcttttactcag---tgagtgatt----------tatactgaatcttttttgtcctatgcagTTACTGGAAGTTATGAAGATTGATAATGCTAATGGAAGAATACCAGTAGATGACTTTCTAGAGTTGGTTGCTCGTATATCAGATATTAGACACCCTAACA
















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|86888359|gb|CI303641.1|CI303641
EST:     GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGG                         TTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
genomic: GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGGgtatgtttac ... tcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
EST: gi|86836190|gb|CI346198.1|CI346198
EST:     GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGG                         TTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGGATACCGGTAGAT
genomic: GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGGgtatgtttac ... tcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
EST: gi|426609|gb|D22431.1|D22431
EST:     GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGG                         TTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
genomic: GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGGgtatgtttac ... tcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
EST: gi|313080046|gb|HO213366.1|HO213366
EST:     GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGG                         TTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
genomic: GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGGgtatgtttac ... tcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
EST: gi|8860079|gb|AU097397.1|AU097397
EST:     GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGG                         TTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT
genomic: GAGAGAGTAGGTTGGGAAAAGTATATCTGGCAGAACTTCCTGAAGGCAGGgtatgtttac ... tcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggaattttatgattattgaaatgctatactaatcttcctttatcctatgcagTTCTTGGAAGTTATGAAGATTGATAACGCCAATGATAGAATACCGGTAGATGAATTTCTAGAACTGGTTGCAAGTGTATCAGATATTAGGCATCCCAACA
                             tactaat  putative branch site (score: 1)
                                   tcttcctttatcctat  CT-rich tract
     aattttatgattattg  TA-rich tract