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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtccctgatctgcacatttcttgctttttctaaaaatatgcagtgatcttgcctgatttgttcgagtatatacttgatgaattactgacctctgcattcatatgttccagGGTTGCATACCATGCTTTGGATCTCCATCATGCCAGTGGTG

Basic information

species Oryza sativa
transcript LOC_Os05g09050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g09050.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G000376_T01 (Zea mays), 3'ss of exon 5
gtcagtccctgatctgcacatttcttgctttttc--taaaaatatgcagtgatcttgcctgatttgttcgagtatatacttgatgaattactgacctctgcattcatatgttccagGGTTGCATACCATGCTTTGGATCTCCATCATGCCAGTGGTG-----------------------------------------------------------
 |   | || ||   |||  | | ||||   |||  |  ||| |   | | ||       |  | || | |  ||  |  ||| ||      ||    |  ||  |||||   |||| | ||| |||||||| ||||||||||||||||| ||||||                                                           
-tatattccggagaggcaagtcttttgccccttcctttcaaaaaaaaaataat------agggtcgtcc-atcatgcatctgacga-----cgatgcatatatatatatg---cagGATGGCACACCATGCTCTGGATCTCCATCATGCCGGTGGTGATCATCCTGTCCGTGGGGACGAAGCTGCAGGGCATCATCTGCCGCATGGCGATCGACAT

upper sequence: LOC_Os05g09050.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G325653_T01 (Zea mays), 3'ss of exon 4
gtcagtccctgatctgcacatttcttgctttttctaaaaatatgcagtgatcttgcctgatttgttcgagtatatacttg-atgaattactg-acct-ctgcattcatatgt------tccagGGTTGCATACCATGCTTTGGATCTCCATCATGCCAGTGGTG-----------------------------------------------------------
||  || | | ||  | |    |  | |    || | |   |||||   |||||   |   ||  |    ||| ||  |  ||| ||   || |  | |||| | |||   |      | |||| | ||| |||||||| ||||||||||||||||| ||||||                                                           
gtacgtacgt-atacgtaggggttgttcgagatcgagatccatgcatgcatcttctatctattactattatatgtatatacatgcatgcatgcatatgctgcgtgcatgaatcatgaatgcagGATGGCACACCATGCTCTGGATCTCCATCATGCCGGTGGTGATCATCCTGTCGGTGGGGACGAAGCTGCAGGGCATCATCTGCCGCATGGCGATCGACAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgttcgagtatatacttgatgaattactgacctctgcattcatatgttccagGGTTGCATACCATGCTTTGGATCTCCATCATGCCAGTGGTG
                           tactgac  putative branch site (score: 1)
           tatatactt  TA-rich tract