Sequence
atgc intronic sequence ATGC exonic sequencegtatgcagatttttgcatacctgaaatttctgcagtttgtcttctttttaacataccacaaactggagctatatccgcatcatattgagcatttatcctcagtttaattggttctttttccctttttctgctgccagGTCAACTGCGTTGTCATGCGTGGAATGAATGATGACGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATAGAGTTTA
Basic information
species | Oryza sativa |
transcript | LOC_Os02g15870.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g15870.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G135816_T01 (Zea mays), 3'ss of exon 2
gtatgcagatttttgcatacctgaaatttctgcagtt-tgtcttctttttaacataccacaaactggagctatatccgcatcatattgagcattta-tcctcagttt-aattggttctttttccctttttctgctg---ccagGTCAACTGCGTTGTCATGCGTGGAATGAATGATGACGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATAGAGTTTA
|||| || ||||||||| | | || | |||| || | | | | | | |||| |||| | ||| | ||| ||| || | | ||||| || || ||||| || |||| || |||||||||||| || |||||||||| || |||||||| |||||||| ||||||||||| |||||||| ||||||| |||| || |||||||| |||||||
gtatctagttttttgcatgc-tacaactcatgcaattctattaagtcaactgttttctctatgatggaaacatattc---tcaaaatgaacatctagtatttagttttgatcaattatttttgcccacttcttctatacccagGTCAACTGTGTCATCATGCGTGGTATAAATGATGATGAGATCTGCAATTTTGTTGAATTGACGAGACACAAGCCCATCAACGTTAGATTTATTGAGTTTA
upper sequence: LOC_Os02g15870.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT2G31955.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgcagatttttgcatacctgaaatttctgcagtttgtcttctttttaacataccacaaactggagctatatccgcatcatattgagcatttatcctcagtttaattggttctttttccctttttctgctgccagGTCAACTGCGTTGTCATGCGTGGAATGAATGATGACGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATAGAGTTTA
| || | | | || | ||| |||| ||| | | | || | |||| | || || | | || | | || | |||||| | || |||||||| || ||| ||||| | ||| |||||||||| ||||| |||||||||||||| |||| | |||||||| |||||||| | || || |||||||
--------------gtatgtttattaatccttcttcatgttttctgtttga------atgtagcagaacgatatttg----atgttcaagagtttt------tgcaaatcgttcttggttt----------tgacagGTCAATTGTGTTATCATGAGGGGATTGAATGATGATGAGATTTGTGATTTTGTTGAGTTGACACGCGACAAGCCAATCAATGTCCGGTTCATCGAGTTTA
upper sequence: LOC_Os02g15870.1 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv13s0156g00170.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------gtatgcagatttttgc--atacctgaaatttctg-cagtttgtcttctttttaacataccacaaactggagctatatccgcatcat--attgagcatt-tatcctcagtttaat---tggttctttttccctttttctgc------tgccagGTCAACTGCGTTGTCATGCGTGGAATGAATGATGACGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATAGAGTTTA
| |||| | |||| | | ||| ||| | ||||| |||| | || || | | | | | | | || |||| || || || |||| | || || | | ||||| | ||||| ||||| ||||| |||||||| | |||||||| |||||||||||||| || || ||||| | || || || | ||| | | ||||| ||||| |
gtatgttttgtcttttcaatttatgattgcatgcctttccttgctaaaatctgttcttttagatagtttctctttctgccaaagtaatattaggtcttattcattaggtcttattcattgtcttttataatgcaagattaaaacatattttccttccattcattctgtacgctgtctcagGTGAACTGTGTTGTAATGCGTGGGTTCAATGATGATGAGATCTGTGATTTCGTAGAGATGACTCGTGATAAACCAATTAATATTCGGTTTATTGAGTTCAMapped 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|29675363|gb|CB671638.1|CB671638EST: CATGGAATCGATAGATGCTTCTATACAACTTGGGATTCCAATCTGTCAAG GTCNACTGCGTTGTCATGCGTGGAATGAATGAT
genomic: CATGGAATCGATAGATGCTTCTATACAACTTGG-ATTCCAATCTGTCAAGgtatgcagat ... ctgctgccagGTCAACTGCGTTGTCATGCGTGGAATGAATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgagcatttatcctcagtttaattggttctttttccctttttctgctgccagGTCAACTGCGTTGTCATGCGTGGAATGAATGATGACGAGATCTGTGATTTTGTTGAAATGACGAGAGACAAGCCTGTCAATGTCAGATTTATAGAGTTTA
gtttaat putative branch site (score: 4)
ttggttctttttccct CT-rich tract
agtttaatt TA-rich tract