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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGGAAGATCATATTGATTAAGAATATGCCTTATAATGACATGCGGAGAGTCGGCAAAATACCGAAATTTCTGGCACATCGTCTTTTCCCATCATCAAGgtaaaaatgaatgttcttatatatggtggttgtacttttttttttccacattgaatccacactgtcatgtttatgggccaatatcattcttaatcctcag...

Basic information

species Oryza sativa
transcript LOC_Os11g09170.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g09170.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G011404_T01 (Zea mays), 5'ss of exon 4
TATGGAAGATCATATTGATTAAGAATATGCCTTATAATGACATGCGGAGAGTCGGCAAAATACCGAAATTTCTGGCACATCGTCTTTTCCCATCATCAAGgtaaaaatgaatgttcttatatatggtggttgtacttttttttttccacattgaatccacactgtcatgtttatgggccaatatcattc--ttaatc-ctcag--
||||||||||||||||||||||||||||||| |||||||||||||| ||||| || |||||||| |||||| |||||||  | || || |||||||| |||||| | ||| | |   |||  |   ||  ||| ||  |||| |      ||   ||      ||| | ||  ||    | | |  ||   | | |  ||||   
TATGGAAGATCATATTGATTAAGAATATGCCGTATAATGACATGCGTAGAGTGGGGAAAATACCAAAATTTTTGGCACACAGGCTATTTCCATCATCGAGgtaagagtgagtttctctatg-acaatgcatgt-ctaattttataatgagtt---tcttggtagtccttttcttgaaatattttattttagtgagttactcaaat

upper sequence: LOC_Os11g09170.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G139621_T01 (Zea mays), 5'ss of exon 4
TATGGAAGATCATATTGATTAAGAATATGCCTTATAATGACATGCGGAGAGTCGGCAAAATACCGAAATTTCTGGCACATCGTCTTTTCCCATCATCAAGgtaaaaatgaatgttctt----atatatggtggttgtacttttttttttccacattgaatccacactgtcatgtttatgggccaatatcattcttaatcctcag
||||||||||||||||||||||||| |||||||||||||||||||| ||||| || |||||||| || ||| |||||||  | || ||||||||||| |||||| |  |  | |   |    ||  ||    | | || |  |   ||||    |    |      ||  || || ||     | |    | || || | |   
TATGGAAGATCATATTGATTAAGAACATGCCTTATAATGACATGCGTAGAGTGGGGAAAATACCAAAGTTTTTGGCACACAGGCTATTCCCATCATCGAGgtaacagagtctctctatgacaatgcatatctgatttaatagtgcgtttctttgtaatctttttcttgaaatatt-atattttagtgagttcctcaaactt---

upper sequence: LOC_Os11g09170.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0072g01020.t01 (Vitis vinifera), 5'ss of exon 4
TATGGAAGATCATATTGATTAAGAATATGCCTTATAATGACATGCGGAGAGTCGGCAAAATACCGAAATTTCTGGCACATCGTCTTTTCCCATCATCAAGgtaaaaatgaatgttctta-tatatggtggttgtacttttttttttccacattgaatccacactgtcatgtttatgggccaatatcattcttaatcctcag--
|||||||||   |  |  | |||||| ||||||||| ||| |||||||||||||| |||||||| ||| ||||||||||||| ||||| || ||  |||||||| ||| |      ||| |||||||   ||  |  || |  |  || | || |    ||  |||   | |  |     | | |   |   | || || |  
TATGGAAGACTGTGGTAGTGAAGAATTTGCCTTATACTGATATGCGGAGAGTCGGAAAAATACCCAAACTTCTGGCACATCGGCTTTTTCCTTCTGCAAGgtaagaattagatcaattagtatatgggaatt--atcttctagtaacctctttcagataactttgtttagatagttt-ttattgtttgttacactcttctgca

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|58682700|gb|CK071387.1|CK071387
EST:     GTCGGCAAAATACCGAAATTTCTGGCACATCGTCTTTTCCCATCATCAAG                         GTTCTCAATCTGGTTAGACAGCAAATTGCGATTACAAAATGATCCTATCCT
genomic: GTCGGCAAAATACCGAAATTTCTGGCACATCGTCTTTTCCCATCATCAAGgtaaaaatga ... cttgtgtcagGTTCTCAATCTGGTTAGACAGCAAATTGCGATTACAAAATGATCCTATCCT