Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacatcctcatttatctgtctaacactagtacattctttgctaattgcctgtgttatcaagcatgtatttgacaatgctatctgttaatgcaacatctcatgacacattcattgcagtgctatccaaattgacagaactcaatcttttaggttgattgaactaaatcatgtgttccttcataatgtgcaacagATGTATGTCACGCCGCCTGACACTGACATCTACTCCATCCCAAGGGTTCTTGCTCCGATGCCGCAAAAG

Basic information

species Oryza sativa
transcript LOC_Os11g01890.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g01890.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G829928_T02 (Zea mays), 3'ss of exon 1
gtatacatcctcatttatctgtctaacactagtacattctttgctaattgcctgtgttatcaagcatgtatttgacaatgctatctgttaatgcaacatctcatgacacattcattgcagtgctatccaaattgacagaactcaatcttttag-gttgattgaactaaatcatgtgttccttcataatgtgcaacagATGTATGTCACGCCGCCTGACACTGACATCTACTCCATCCCAAGGGTTCTTGCTCCGATGCCGCAAAAG
                                                                                     || |   |   |  | ||    |    |||  ||    | | ||  |   | || ||||||  | | | | | ||    || |     |  || ||       | ||||||||||||||||||||| || ||||| |||||||||||||| || ||||||||||| ||||||||||| |||
-------------------------------------------------------------------------------------tgctggcgatgctacccagattaacaacatcaca----tgtacatgtcttctga-ctcaattgtgtggcgctcatcttgctgagcacggcatttct-------gcgcaacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG
















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|29662875|gb|CB659150.1|CB659150
EST:     GCAAGGTGCCTGACCCCGACGACGACGTCTTCGACTTCCGGGAG                         ATGTATGTCACGCCGCCTGACACTGACATCTACTCCATCCCAAGGGTTCTT
genomic: GCAAGGTGCCTGACCCCGACGACGACGTCTTCGACTTCCGGGAGgtatacatcc ... tgtgcaacagATGTATGTCACGCCGCCTGACACTGACATCTACTCCATCCCAAGGGTTCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatcttttaggttgattgaactaaatcatgtgttccttcataatgtgcaacagATGTATGTCACGCCGCCTGACACTGACATCTACTCCATCCCAAGGGTTCTTGCTCCGATGCCGCAAAAG
                    aactaaa  putative branch site (score: 2)
                    aactaaat  TA-rich tract