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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAATgtgagtagggttcctcgttcgatctattgtgatgtcaatatctagttatatatgtgcatgggtaggttcttattgtttgaacatggcaaccatgttattt...

Basic information

species Oryza sativa
transcript LOC_Os08g37960.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g37960.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G016296_T06 (Zea mays), 5'ss of exon 4
GGCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAATgtgagtagggttcctcgttcgatctattgtgatgtca-atatctagttatatatgtgcatgggtaggttcttattgtttg-aacatggcaaccatgttattt---
| ||| ||||||||||||| |||||||||||||||||||| ||||| || |||||||| |||||||||||||||||   |  ||     |||| | | |||| |  |  || ||  | | | |||  || ||   |   |   | || ||||||       | | ||||   
GCCGTGATGTGGATGGGAGAAACATCATGGTGCAGTTTGCAAAGTACGGCCCCAATGCTGAGCCAATgtgagtagg---caccgcctcttctactctcatgttatgttacttgtggtgtttatgc--ggttaacataacaacatatgtaacatgttgcttgtctcatttatt

upper sequence: LOC_Os08g37960.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G110143_T02 (Zea mays), 5'ss of exon 4
GGCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAATgtgagtagggttcctcgttcgatctattgtgatgtcaatatctagttatatatgt-gcatgggtag--gttcttattgtttgaa-catggcaaccatgttattt---------
| |||||||||||||||||||||||||||||||||||||| ||||| || |||||||| | |||||||||||||||    |  ||             ||||  ||| |  ||||  | ||| |  |  ||||   |  | |   |  ||| ||||  |   || | ||||         
GCCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCAAAGTACGGCCCCAATGCTGTGCCAATgtgagtaggcacacctgt-------------atgttgataacctgttacctgtgttgtttatgtagttatcatgacaataagaagcatgatatttatctcattttgttgtgga

upper sequence: LOC_Os08g37960.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G110143_T01 (Zea mays), 5'ss of exon 4
GGCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAATgtgagtagggttcctcgttcgatctattgtgatgtcaatatctagttatatatgtgcatgggtaggttcttattgtttgaacatggcaaccatgttattt
| |||||||||||||||||||||||||||||||||||||| ||||| || |||||||| | |||||||||||||||    |  ||             ||||  ||| |  ||||  | |||   ||  || ||  ||||  |  ||  ||   || ||||      
GCCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCAAAgtacggccccaatgctgtgccaatgtgagtaggcacacctgt-------------atgttgataacctgttacctgtgt---tgtttatgtagttatcat--gacaataagaagcatg------

upper sequence: LOC_Os08g37960.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G110143_T03 (Zea mays), 5'ss of exon 3
---------------------------------GGCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAATgtgagtagggttcctcgttcgatctattgtgatgtcaatatctagttatatatgt-gcatgggtag--gttcttattgtttgaa-catggcaaccatgttattt---------
                                 | |||||||||||||||||||||||||||||||||||||| ||||| || |||||||| | |||||||||||||||    |  ||             ||||  ||| |  ||||  | ||| |  |  ||||   |  | |   |  ||| ||||  |   || | ||||         
TATTTTTGATAATTGTAGATTTTTTGGGTGCAGGCCGTAATGTGGATGGGAGGAACATCATGGTGCAGTTTGCAAAGTACGGCCCCAATGCTGTGCCAATgtgagtaggcacacctgt-------------atgttgataacctgttacctgtgttgtttatgtagttatcatgacaataagaagcatgatatttatctcattttgttgtgga

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|33794171|gb|CF322976.1|CF322976
EST:     AGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAAT                         ACGAAAAGGAAGGATCATAGAAGAGGTTGAGAAATCACGGGACAGGTCAAG
genomic: AGGAACATCATGGTGCAGTTTGCCAAGTATGGGCCCAATGCGGAGCCAATgtgagtaggg ... atctctgtagACGAAAAGGAAGGATCATAGAAGAGGTTGAGAAATCACGGGACAGGTCAAG