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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtctaggactgttaggtagaggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg...

Basic information

species Oryza sativa
transcript LOC_Os10g39620.5
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G170843_T02 (Zea mays), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtc---taggactgttaggtagaggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg
||||||||  |  | || ||||||| |||||| ||  |||||||||||||||||||||||||||| |||||||||||||||||||||||||| |||||||||  ||| |     | |  | | ||| |  | | |||  |||   || ||| ||  |  |  |  | |    |    ||  || |         |  |   ||
AAGGAGGTCTTATCCGGTAGCTGCGGCGTGCCAGCACCGCAGCAGCGCCTGATCTACAAGGGCCGCATCCTCAAGGACGAGCAAACCCTAGACAGCTATGgtacgtgccacgccgaaacgct-ggttgtagtgtagagtaaagtaccttcagat--ttggtgtcgtagcgtgggattgtccgattctgttcatcaattcggcg

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G136769_T01 (Zea mays), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtctaggactgttaggtagaggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg-
|||||||| || || ||||||||||||||||||||| |||||||||| ||||||||||||||||| |||||||||||||||||||||||||||||||| |||  ||| | | | | |   | | |     ||| |||  | | |   |  | |    |     ||||    |  | |    || |     |    |   | 
AAGGAGGTCGTAGCCGGGAGCTGCGACGTGCCGGCGCCGCAGCAGCGTCTGATCTACAAGGGCCGCATCCTCAAGGACGAGCAAACCCTAGAAAGCTACGgtacgtgcc-acgccggaacgctcgttttagagtaaagtacctctcgatttagcgtcgtaccgtggtattgtccgattctgttcatgaattgtcggtgggc

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA01G36410.1 (Glycine max), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtctaggactgttaggtagaggaggagaaaaaaaacccatcaaatc--gtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg--
||||| | ||| ||  | | ||| ||| |  | ||||  || ||||||||||| |||||||||||||| |||||||| || ||||||||  |||||||||||   |  |  |  ||    | |    | | |            ||  | |    |  |  ||||| |    || | ||   |  ||  |    | || |    
AAGGACGCGGTTGCACGCAACTGTGACATATCCGCGGATCAACAGCGCCTGATTTACAAGGGCCGGATTCTCAAGGATGATCAAACCCTCCAAAGCTATGgtatttacc--gatcttgctgttctccgtgtatttctcttttgtattgactttgatttgagttttttgcagcatcgattt--agcgattttgctcatgtttcat

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA11G08990.1 (Glycine max), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtctaggactgttaggtagaggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg--
||||||| ||| ||    |  || ||  |  |  | |  || ||||||||||| |||||||| |||||||||||||| || ||| ||||  ||||||| |||      | |    | ||        |    ||     |    ||    |||    |||||   |     ||| |     || | ||   |  |  | |  
AAGGAGGCGGTTGCTCACAATTGTGATATATCCTCTGATCAACAGCGCCTGATTTACAAGGGTCGGATCCTCAAGGATGATCAACCCCTCCAAAGCTACGgtatccacccatc-ttatttctcttttgtattgactttgatttgatttgttcgcatcgatttaacgattt-tggctcatgtttaatatataaattaattgaa

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: AT2G17200.1 (Arabidopsis thaliana), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagt------gtctaggactgttaggtagaggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg------
|| ||| |||||||   |||| |||| || || ||    ||||||||| |||| |||||||| || |||||||||||||| ||||| ||    ||||||||| |        || |  || |  |  ||   ||             | | |  |  | |   ||||     ||   ||| ||  | |     ||  || || |        
AAAGAGTTGGTGGCTCAGAGCAGCGATGTTCCAGCTAATCAGCAGCGCTTGATTTACAAGGGTCGTATCCTCAAGGACGATCAAACTCTCCTCAGCTATGgtaatcttcatcgtttctgatttattcgtgtgggtacttttgttgttctcgtagatccttattgattgaaattcttgtggattctattctctgtggaacatgttatacctag

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv04s0210g00220.t01 (Vitis vinifera), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtctaggactgttaggtagaggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg----
|| |  ||  |  ||  || ||||||  | || |||| |||||||||  |||| |||||||| |||||| | |||||||| ||||||||||| ||||| |||   |    |   || |    |    |      |   |  |   |   || |  ||   |  |  |   |    || || || |  |  |   || | |    
AAAGCCGTTCTCTCGCAGAACTGCGATATTCCCGCGGAGCAGCAGCGATTGATTTACAAGGGACGGATCTTGAAGGACGACCAAACCCTAGAGAGCTACGgtatattgacatttctatccatt----gctctccacgcagtctgttgttatgggtagttgtagtattgaaagaacttcgatttaagtttttgtttggttgcgtc

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S70_281V6.1 (Physcomitrella patens), 5'ss of exon 1
AAGGAGGTGGTGGCGGGGAGCTGCGACGTGCCGGCGGCGCAGCAGCGCCTGATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtctaggactgttaggtaga--ggaggagaaaaaaaacccatcaaatcgtcaggatttttggtccgatgggttggaattgacatgctacgtgctcg------
||||   || ||| || ||  |  ||  | |||||||  || |||||  ||||||||||||| ||| | ||||||||||||||||| ||    |||||||||| |||   | || |  | | | ||  ||   |     |       | ||||  | |      |||||    | | || |  |||    |  | | | |||      
AAGGGCTTGTTGGTGGAGAAGTCTGAGATTCCGGCGGACCATCAGCGGTTGATCTACAAGGGTCGGGTGCTCAAGGACGAGCAAACGCTCAGTAGCTATGgtgggtg--catgaatagtggattgattggcttacctcgattgttatttaaatttttaca----ttggtgtagttgttttgggttgt--ggtcaggggttcgattttt

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|29631292|gb|CB636301.1|CB636301
EST:     GATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATG                         GTGTTGAAACAGATCATACCATTCATATGGTGCGTGGCGCTGGTCCCCCAG
genomic: GATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtct ... tattttgtagGTGTTGAAACAGATCATACCATTCATATGGTGCGTGGCGCTGGTCCCCCAG
EST: gi|29634976|gb|CB639985.1|CB639985
EST:     GATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATG                         GTGTTGAAACAGATCATACCATTCATATGGTGCGTGGCGCTGGTCCCCCAG
genomic: GATCTACAAGGGCCGGATCCTCAAGGACGAGCAAACCCTAGAAAGCTATGgtgagtgtct ... tattttgtagGTGTTGAAACAGATCATACCATTCATATGGTGCGTGGCGCTGGTCCCCCAG