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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggtattgctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag

Basic information

species Zea mays
transcript GRMZM5G871262_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctc--------aaatgaagagtgaaatta--gttgctttgttta------caggtat-----tgctgtggatatt------taaaact--tgaacgtactttgatacttgaaccacaaaacatgcag
|||||||||| |||||||| |||||||| ||||||||||| ||||| |||||||||||||||||| ||||||| || ||||||||||||||||| |||||||  || ||        ||||  | ||| |  |||  |||| ||  |  |        | |||     ||  |||||||||      | |||||  ||||  |  | ||||  || |||  |  || ||||||
TCTGTGCCACAGCTTTTGCTTATTATGCGCAAGCAACTGCAGCTCAGGAGATCTTTGGCCACACACTGCAATCTCTCCGTGGAATTAAGTATCTCTACAAgtatgtatctagcatgcaaatccatagtcagtttacagttgtttgctcgaataagctggatatatccatgtggtggatattggagcatcaaacttttgaaaatgttctgat--tttaacatctgaatatgcag

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G18160.1 (Glycine max), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggtattgctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag-
||||  |||| || |||||||| ||||| ||||||||||| || || || || ||||||||||| ||| | || ||||| |||||||| ||| | ||||||||||||   |||   || |     |   |   ||| |      |  | ||| ||  |   |         | |  |   |   |  |     | | ||  ||  
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAATATTTGTACAAgtgagtc---aatcgggatttcttctgcctctcttgctc-tgccttatactg-gggcaaaaatggtcccttccttttgctaagttgtagatctagagcacacaat

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA03G07890.1 (Glycine max), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggtattgctg--tggatatttaaaactt-gaacgtactttgatacttgaaccacaaaacatgcag
||||  |||| || |||||||| ||||| ||||||||||| || || || || ||||||||||| ||| | || |||||||||||||| ||| | ||||||| ||||  |  || | | |    |   |  || |    |    | |   ||  || | || | ||   | |||| ||   |  |  || |    ||||   |    
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCACAGGAAATATTTGGCCACACCTTGGAGTCTCTTCGTGGAATTAAATATTTGTACAAgtaagtca-agctggatattt--ttccctcactctccccaaccctctgattgggtgaagatgtgaagtatagaacctaaacttttcgtttacttgcaaattgt----

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA16G19230.1 (Glycine max), 5'ss of exon 11
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggtattgctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag-
||||  |||| || |||||||| ||||| ||||||||||| || || || || ||||||||||| ||| | || ||||| |||||||| ||| | ||||||||||||   |||   || |     |   |   ||| |      |  | ||| ||  |   |         | |  |   |   |  |     | | ||  ||  
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGCCACACTTTGGAGTCTCTTCGAGGAATTAAATATTTGTACAAgtgagtc---aatctggatttcttctgcctctcttgctc-tgccttatactg-gggcaaaaatggtcccttccttttgctaagttgtagatctagagcacacaat

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA01G30400.1 (Glycine max), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggt--attgctgtggatatttaaaactt-gaacgtactttgatacttgaaccacaaaacatgcag
||||  |||| || |||||||| ||||| ||||||||||| || || || || ||||||||||| ||| |||| |||||||||||||| ||| | ||||||| ||||  |  || | | |           |||     ||   |  ||||  ||| | |  | ||   | |||| |||  |  |  || |    ||||        
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCACAGGAAATATTTGGCCACACCTTGGAATCTCTTCGTGGAATTAAATATTTGTACAAgtaagtca-agctggatatttttcccgcgctcttccccaacccttggattgg-gtgaagacgtgaagtatagaacctacacttttcgttaacttgcaaattt-----

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G43020.1 (Glycine max), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagt-tgctttgtttacaggtattgctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag
||||  |||| || |||||||| ||||| ||||||||||| || || || || ||||| ||||| ||| | || ||||| |||||||| ||| | ||||||||||||      ||    |     |    |||| ||  | | |||   ||        |       ||  ||    ||  | |  |  | |||| ||       
TCTGCTCCACAGCATTTGCCTACTATGCTCAAGCAACTGCAGCCCAGGAAATATTTGGTCACACTTTGGAGTCTCTTCGAGGAATTAAATATTTGTACAAgtgagtcagtctggattcttctgcctctcctgctctgccttctggtggggcaaaaatggtcccttcttttcactatgttgtaaatctagagcacacaatg-----

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaattagttgctttgtttacaggtattg--ctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag
|||| ||||| || ||||  |||||||| ||||| || || ||||| ||||| ||||||||||| ||||| |||||||| || |||||||| || ||||||| |||   |   |     || || ||   |  |   ||      ||    |||  |||| |     |||   | ||     ||  || |                
TCTGCGCCACTGCATTTGGATATTATGCTCAAGCCACCGCCGCTCAGGAGATATTTGGCCACACTTTGCAGTCCCTTCGCGGTATTAAGTACCTCTACAAgtaagtaatatcgggtttttgcaaataaaggtctcacttgtgtacataagactgatgataatcttcccttt--cttatcggtatctttcag---------------

upper sequence: GRMZM5G871262_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 5'ss of exon 12
TCTGTGCCACGGCTTTTGCCTATTATGCACAAGCAACTGCTGCTCAAGAGATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctcaaatgaagagtgaaat-tagttgctttgtttacaggtattgctgtggatatttaaaacttgaacgtactttgatacttgaaccacaaaacatgcag
| |||||||| || ||||  ||||| || ||||| |||||||| || ||||| ||||||||||||||||| |||||| | ||||||||||| |||||||||| |||   | | |  |  | | || |||  |   | |          || || |  |  || |   ||     || ||                          
TTTGTGCCACTGCATTTGGATATTACGCTCAAGCCACTGCTGCCCAGGAGATATTTGGCCACACATTGCAGTCCCTTAGAGGAATTAAGTACCTTTACAAgtaagt---agaagtggtataacatatagcagtcatatgctatatccgtgatgcgtcttattgaggttt---tatatttcag-----------------------

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|89251977|gb|DY623763.1|DY623763
EST:     ATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTTGCTCTTGCCATCCTCACACTCTT
genomic: ATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctca ... aaacatgcagGTACAATGTTTTCCAGTATGGCTTTGTTGCTCTTGCCATCCTCACACTCTT
EST: gi|78121981|gb|DV540365.1|DV540365
EST:     ATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAA                         GTACAATGTTTTCCAGTATGGCTTTGTTGCTCTTGCCATCCTCACACTCTT
genomic: ATCTTTGGCCACACATTGCAATCCCTTCGTGGAATTAAGTATCTTTACAAgtgagtctca ... aaacatgcagGTACAATGTTTTCCAGTATGGCTTTGTTGCTCTTGCCATCCTCACACTCTT