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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttagggaaaaaatcctgtcaagctgaagaaaccccgtattttattaccagtctgtaggctatagattaacgtaaatttctgcttgccttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG

Basic information

species Zea mays
transcript GRMZM2G452529_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G452529_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g55360.1 (Oryza sativa), 3'ss of exon 10
-ttgttagggaaaaaatcctgtcaagctgaagaaaccccgtattttattaccagtctgtaggctatagattaacgtaaatttctgcttgccttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG
 || ||  ||  |  ||   | || ||   |  |          |  | || ||  |  | | |  |  ||     |  | |     | | |||||||||||||||||||||||| |||||||||||||| ||||||||||||||  | || || |||| |||||||||| |||||||||| |||
tttattctggtcagtatta-gacatgcatgattattttttatcatcctaacaagctttcatgttgcaagttgctaaacttgttcctgttcattttccccagATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG

upper sequence: GRMZM2G452529_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G32660.1 (Glycine max), 3'ss of exon 9
ttgttagggaaaaaatcctgtcaagctgaagaaaccccgtattttattaccagtctgtaggctatagattaacgtaaattt---ctgcttgccttt-tccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG
||      |   |      | |  |  |   |||||    ||  || ||||   || |    ||||  |  |   |||| |   |   |||||||  |    ||||||||||||| ||||||||||||||||| || || |||||  |||  || || |   |||| ||||| || || ||||| |||
tttcatttgttgaggctaggactggaagtcaaaacc----atactagtacccagctttgatgtataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG

upper sequence: GRMZM2G452529_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA20G34940.1 (Glycine max), 3'ss of exon 10
ttgttagggaaaaaatcctgtcaagctgaagaaaccccgtattttattac-cagtctgtaggctatagattaacgtaaatt--tctgcttgccttt-tccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG
      || ||    |  | |  |         ||    |   | | ||| |  | ||||  || ||| | | |  || ||   |   ||| |||  |    ||||||||||||| ||||||||||| ||||| || ||||||||  |||  || || |   |||| ||||| || || ||||| |||
---actggcaactcctatttttcactctcctttacattctgcctcagtacactatttgtat-ctttagttgagcaaaatttgaccaatttgtcttggtgtgtagATGGTTATGGCGGTGTTTGCATATATATATCATCAATCATTTGTTGTGCCGCAAACTCTCTCAGTTGAAATGATTTTGGACCAG

upper sequence: GRMZM2G452529_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT1G62430.1 (Arabidopsis thaliana), 3'ss of exon 10
---------------------------------------------ttgttagggaaaaaatcctg-----tcaagctgaagaaaccccgtattttattaccagtctgtaggctatagattaacgtaaatttctgcttgccttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG
                                             |  |||| |     || |       ||    || | |  |  | | | | | |  ||   |  ||  |||| || |||   |  |  || |  |  ||    ||||||||||||||||| ||||| |||||||| |  |||||||| ||||   | || | | | || ||||| | |||| | || |||
gtaactctaatgaaactagtatctcttcgtaagattatgattaggtctttagagttttcattcacaagattcgcattgcatattcttcttctctaactctcatctttaagcatatacataaaccagacctaatgttatctattgttacagATGGTTATGGCAGTATTTGCCTACATATATCTTCAATCATTTATTGTCTCCCAAAGCGTTTCGGTTGACAAAATCCTAGACCAG

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|5871566|gb|AW018037.1|AW018037
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|166616965|gb|EG156756.1|EG156756
EST:     AGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCA
genomic: AGCATACCTGGGCATGGTGGAATTACTGACAGAATGGA-TTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCA
EST: gi|60348342|gb|DN215315.1|DN215315
EST:     GTGTCAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|4646646|gb|AI491480.2|AI491480
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTG
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTG
EST: gi|88753935|gb|DY538076.1|DY538076
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|211372465|gb|FL432864.1|FL432864
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|7145231|gb|AW506712.1|AW506712
EST:     CTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: CTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|6031444|gb|AW076346.1|AW076346
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|78021196|gb|DV489583.1|DV489583
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|5915325|gb|AW052966.1|AW052966
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATNCATATACCCCCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
EST: gi|78023335|gb|DV491722.1|DV491722
EST:     GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAA                         ATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT
genomic: GTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatct ... ttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaccagtctgtaggctatagattaacgtaaatttctgcttgccttttccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG
                     gattaac  putative branch site (score: 2)
                                 tttctgcttgcctttt  putative PPT
                      attaacgtaaattt  TA-rich tract