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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtatccataccacattctataatttactcatgcatcaaagtatgttttttgttttctttactattttgttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGTTGTTGGCTGTATCTTGTGTGTTGTTGGCTCTGTTGGTATAGTTTTGCAT

Basic information

species Oryza sativa
transcript LOC_Os02g29510.4
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g29510.4 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G092991_T04 (Zea mays), 3'ss of exon 4
gtagtatccataccacattctataatttactcatgcatcaaagtatgttttttgttttctttactattttgttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGTTGTTGGCTGTATCTTGTGTGTTGTTGGCTCTGTTGGTATAGTTTTGCAT-----
|||| | |  |||     ||    |||| ||  |||| | |    ||||   | |  | |||| | ||||| ||||||||||||||||||||||||||| |  ||||||||||  | || |||||||| |||||||| || ||  | ||||||||||| |||||||||||||||||||||     
gtag-agctttactgtcatcgtagatttcct--tgcacctag---tgttgcgt-tcctgtttaatgttttgctcatgcagtgcagTGCTCGCACACTTCATTCTGAAAGAAAATTTGCACATGTTTGGCGTTGTTGGTTGCATACTATGTGTTGTTGGTTCTGTTGGTATAGTTTTGCATGCCCC

upper sequence: LOC_Os02g29510.4 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G092991_T03 (Zea mays), 3'ss of exon 3
gtagtatccataccacattctataatttactcatgcatcaaagtatgttttttgttttctttactattttgttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGTTGTTGGCTGTATCTTGTGTGTTGTTGGCTCTGTTGGTATAGTTTTGCAT
|||| | |  |||     ||    |||| ||  |||| | |    ||||   | |  | |||| | ||||| ||||||||||||||||||||||||||| |  ||||||||||  | || |||||||| |||||||| || ||  | ||||||||||| |||||||||||||||||||||
gtag-agctttactgtcatcgtagatttcct--tgcacctag---tgttgcgt-tcctgtttaatgttttgctcatgcagTGCAGTGCTCGCACACTTCATTCTGAAAGAAAATTTGCACATGTTTGGCGTTGTTGGTTGCATACTATGTGTTGTTGGTTCTGTTGGTATAGTTTTGCAT
















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|29670491|gb|CB666766.1|CB666766
EST:     GCTCCCGCTGTACTTGTTACTCCTCTAGGAGCTCTTAGCATTATATTTAG                         TGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGT
genomic: GCTCCCGCTGTACTTGTTACTCCTCTAGGAGCTCTTAGCATTATATTTAGgtagtatcca ... gttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGT
EST: gi|58692400|gb|CK081087.1|CK081087
EST:     GCTCCTGCTGTACTTGTTACTCCTCTAGGAGCTCTTAGCATTATATTTAG                         TGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGT
genomic: GCTCCCGCTGTACTTGTTACTCCTCTAGGAGCTCTTAGCATTATATTTAGgtagtatcca ... gttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGT
EST: gi|29681128|gb|CB677403.1|CB677403
EST:     GCTCCCGCTGTACTTGTTACTCCTCTAGGAGCTCTTAGCATTATATTTAG                         TGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGT
genomic: GCTCCCGCTGTACTTGTTACTCCTCTAGGAGCTCTTAGCATTATATTTAGgtagtatcca ... gttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttactcatgcatcaaagtatgttttttgttttctttactattttgttcatgcagTGCAGTGCTCGCACACTTCGTCTTGAAAGAAAAACTCCATATGTTTGGTGTTGTTGGCTGTATCTTGTGTGTTGTTGGCTCTGTTGGTATAGTTTTGCAT
                      ttttttgttttcttta  CT-rich tract
                  tatgttttttgttttc  TA-rich tract