Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGATGCAAGGACTGTCATGGGATTTGGTGTGCTCAATGGCATTTCAATTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattgtttttgctctgtcctgatcaaaacttaacaggctatcatctggtagtgttgtacttaatgtccttctaattgttggtacccctgctgcta...

Basic information

species Oryza sativa
transcript LOC_Os01g07310.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G116053_T01 (Zea mays), 5'ss of exon 3
TTTTGATGCAAGGACTGTCATGGGATTTGGTGTGCTCAATGGCATTTCAATTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattgtttttgc-tctgtcctgatcaaaacttaacaggctatcatctggtagtgttgtacttaatgtccttctaattgttggtacccctgc-tgcta---
||| ||||||||||||||||||||||| || |||||||||||||| || ||||| ||||| ||||||||||| ||||||||||||||||||||||| |||||| ||||   ||||   | |||  | | | ||||||||  || |   ||  |||    | | ||   |  || |  |      |  || |    | || ||   
TTTCGATGCAAGGACTGTCATGGGATTCGGAGTGCTCAATGGCATATCTATTGGACTTCTTAACTTGAGTCTGGGTTTCAATTCTGTTGGTTTCTATCAGgtatgcatcccttttctgtttgtattcagccaaacttaa--ggtt--tattgggtgacctggcacc-gacttcttattcggcactcatagcatgacatgttatca

upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G081848_T05 (Zea mays), 5'ss of exon 3
TTTTGATGCAAGGACTGTCATGGGATTTGGTGTGCTCAATGGCATTTCAATTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattgtttttgctctgt--cctgatcaaaacttaacaggctatcatctggtagtgttgtacttaatgtccttctaattgttggtacccctgctgcta
||| ||||||||||| ||||||||||| || |||||||||||||| || ||||| ||||| ||||||||| | ||||||||||||||||||||||| ||||||  |||   |||| | || |    | ||    | | | |     || |  |  || ||    |  ||       | |  |  | ||  ||  |       
TTTCGATGCAAGGACCGTCATGGGATTCGGAGTGCTCAATGGCATATCTATTGGACTTCTAAACTTGAGTTTGGGTTTCAATTCTGTTGGTTTCTATCAGgtacacatccctttttccctctaattttatttgtattcatccaaacataaggtt-tattgggtgatctagcactgatttcttattcggcgccaataacatg-

upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA06G14980.1 (Glycine max), 5'ss of exon 3
TTTTGATGCAAGGACTGTCATGGGATTTGGTGTGCTCAATGGCATTTCAATTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattgtttttgctctgtcctgatcaaaacttaacaggctatcatctggta-gtgttgtacttaatgtccttctaattgttg-gtacccctgctgcta-------------
||||||    |   |||| |||||||||||  | || ||||| || |||||||||||| | || ||||| ||||| |||||||||||||| || || ||||| |   || || || ||| |   |     | | ||  || |  ||  | || |  |||||||      |||  ||| | || ||  | ||     ||  ||             
TTTTGAGCAGAAAGCTGTGATGGGATTTGGAATTCTTAATGGAATATCAATTGGTCTTTTAAATTTGAGCCTAGGCTTCAATTCTGTTGGCTTTTATCAGgt-gatttttttctttctcagctat-----atattttgcatgtaatattttgatttgtgttgtttaagttgtttttcaagtttttttgaacaagctctattatatttgcattcag

upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 5'ss of exon 4
TTTTGATGCAAGGACTGTCATGGGATTTGGTGTGCTCAATGGCATTTCAATTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattgtttttgctctgtcctgatcaaaacttaa--caggctatcatctggtagtgttgtacttaatgtccttctaattgttggtacccctgctgcta
|||||| || ||  |||| |||||||||||  | || ||||| |  || ||||| ||| | ||  | ||  | ||||||||||||||||||||||||||||||  |||| || | |  || |     |      | ||   | | | ||| ||     | ||| | |  | ||        ||  |  |     || |  | 
TTTTGACGCTAGAGCTGTGATGGGATTTGGCATACTAAATGGAACATCCATTGGGCTTTTGAATCTTAGCTTGGGTTTCAATTCTGTTGGTTTCTACCAGgta--catttttatcgtcctctggcatttggttttaaaattatgttttcacctaacttttttgcattagaagtgaaatggttttgtaatgtaggtgtttttc

upper sequence: LOC_Os01g07310.3 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 5'ss of exon 4
TTTTGATGCAAGGACTGTCATGGGATTTGGTGTGCTCAATGGCATTTCAATTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattgtttttgctctgtcctgatcaaaacttaacaggctatcatctggtagtgttgtactt-aatgtccttctaattgttggtacccctgctgcta----------------------
 ||||||||||   |||| ||||| |||||  | || ||||| || || ||||| || || ||  |||| || ||||||||||||||||||||||| ||||||   |||  || | ||   |  |    |  | |||   |   | | | ||||  | |   | || | |||   || |     ||||  |    ||  |                       
ATTTGATGCAAAAGCTGTTATGGGTTTTGGCATTCTAAATGGAATCTCGATTGGACTCCTGAATCTGAGCCTTGGTTTCAATTCTGTTGGTTTCTATCAGgtaaa-attaattcttctgaatattccctacta-ttacatgttcaacttttggtcctttgccatttcagtgtttctcaagagagtggtttctgaacttatgttatattgtttgtgtattccag

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|58657497|gb|CK046177.1|CK046177
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|58689272|gb|CK077959.1|CK077959
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|29645955|gb|CB650962.1|CB650962
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|29646078|gb|CB651085.1|CB651085
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|58691484|gb|CK080171.1|CK080171
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|2796302|gb|AA749596.1|AA749596
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|58686479|gb|CK075166.1|CK075166
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|29645083|gb|CB650090.1|CB650090
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|29663298|gb|CB659573.1|CB659573
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|29641313|gb|CB646320.1|CB646320
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|58687536|gb|CK076223.1|CK076223
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAG                         ATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCCCCTGCACTGTTATACTTGAGACTCTTTTC
EST: gi|58656550|gb|CK045230.1|CK045230
EST:     TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTAACAG                         ATGACAAAGCTGGCAATTATCC
genomic: TTGGTCTTCTCAACTTGAGTCTAGGTTTCAATTCTGTTGGTTTCTACCAGgtaggcattg ... ttgttttcagATGACAAAGCTGGCAATTATCC