Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG

Basic information

species Zea mays
transcript GRMZM2G019267_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g72790.1 (Oryza sativa), 3'ss of exon 5
gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtctt-----gttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
||| | | | |    |   ||   || | |  || |||||||  ||  |||| |   |||   | ||||||| ||||| ||| ||||     || | ||||||||||||||||||| |||||||||||||||||||| ||||| || ||||| |||||| ||||||| ||||
gtagaaccacctgtttgtgtgacttgttcttgtttggatgtgatata-ttttgtta-tgacagactgatcttctgatgtgtgatcttctatcgtcccagTGTTACATGAGGCAGCTACTTACAGGCCTGCACTATTGCCATGTTAATCAAGTGCTGCATAGAGATATTAAAG

upper sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA14G04410.1 (Glycine max), 3'ss of exon 5
gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
|||   || |   | ||||   ||||  ||  ||   || | | || ||| |     | ||    |  ||| | | || ||   | |  |  ||||||||||||| |||||  | || || || |||||||||||||| || ||||| || ||||| ||||||||||
gtattactgtt--aatacca--agtg--ttatttcatatat-taatcgttgttcgttttatt--gttgtct-gagttgtgtttcccttcttaagTGTTACATGAGACAGCTTTTGACTGGGCTTCACTATTGTCATGTAAATCAAGTACTTCATCGTGATATCAAAG

upper sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G44400.1 (Glycine max), 3'ss of exon 6
gtacacctatccaagtacct-gcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
|||   || |   | ||||  | | |  ||    ||  ||   |  |  || |||  |||            || | || ||   | |     ||||||||||||| |||||  | || || || |||||||||||||| || ||||| || ||||||||||||||||
gtattactgtt--aataccaagtattatttcatatataatagttgttcattgtattgctg----------tctgagttgtgtttcccttcctaagTGTTACATGAGACAGCTTTTGACGGGGCTTCACTATTGTCATGTAAATCAAGTACTTCATCGAGATATCAAAG

upper sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0009g01800.t01 (Vitis vinifera), 3'ss of exon 6
---------gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaa-tgatcttgtgatgcgtggtcttg-ttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
          || ||||    || | | | |||    ||  | | ||||  | ||   | | || |   |     |   | | |    | |  |  || ||| ||||||| |||||||||||  | || || || ||||| |||||||| || |||||||| ||||| ||||||||||
gtatcacaaata-acctgaaaaatttctttcagataattaatgatgatgcttgatctctctctctcccttcctcctccccctcttcctcatcctgctgcttccagTGTTATATGAGGCAGCTTTTGACGGGGCTTCACTACTGTCATGTAAATCAAGTTCTTCATCGGGATATCAAAG

upper sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
lower sequence: EFJ34303 (Selaginella moellendorffii), 3'ss of exon 3
gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
                                       || |||  | |      ||   |   |       | |  ||  ||  | ||  ||||||| |||| |||||| || || |||||  |||| |||||| ||||||||||||| ||||| ||||||||||
----------------------------------gtagagtttcacagctgcggtgctcccgggttctcaacataacacg--gtgcttttgcagTGTTATATGAAGCAGCTTCTCACCGGCCTTTACTACTGTCATATCAACCAAGTTCTTCATCGGGATATCAAAG

upper sequence: GRMZM2G019267_T02 (Zea mays), 3'ss of exon 5
lower sequence: EFJ31297 (Selaginella moellendorffii), 3'ss of exon 4
gtacacctatccaagtacctgcagtgctttgcttaggatgtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
                                       || |||  | |      ||   |   |            |  |||  | ||  ||||||| |||| |||||| || || |||||  |||| |||||| ||||||||||||| ||||| ||||||||||
----------------------------------gtagagtttcacagctgcgatgctctcgggtt--ctcaacacaacacggtgcttttgcagTGTTATATGAAGCAGCTTCTCACCGGCCTTTACTACTGTCATATCAACCAAGTTCTTCATCGGGATATCAAAG

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|29130258|gb|CB380962.1|CB380962
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|148931632|gb|EC874770.2|EC874770
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|71774594|gb|DR972472.1|DR972472
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|76914973|gb|DV165773.1|DV165773
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|148962681|gb|EE013583.2|EE013583
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|148946782|gb|EC892051.2|EC892051
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAAGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: C-GGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|148938174|gb|EC882457.2|EC882457
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|211438454|gb|FL012016.1|FL012016
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
EST: gi|211438446|gb|FL012008.1|FL012008
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAG
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAG
EST: gi|211435854|gb|FL011998.1|FL011998
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGAWTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATG
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATG
EST: gi|148942610|gb|EC887630.2|EC887630
EST:     CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAG                         TGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA
genomic: CCGGGCTTGCTGATCGGCCAGGAATGCGGTTCACTGTGCCGCAGATTAAGgtacacctat ... cttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtcatggttttatccctgatgaaatgatcttgtgatgcgtggtcttgttctagTGTTACATGAGGCAGCTGCTTACAGGCCTGCACTATTGTCATGTCAACCAAGTTCTGCATCGAGATATCAAAG
               ccctgat  putative branch site (score: 4)
                                            tcttgttct  putative PPT
         ttttat  TA-rich tract