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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgtttgttgaactgcagtgctagtattaacataatgtcttctgaaataaataacacttaatggttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC

Basic information

species Zea mays
transcript GRMZM2G147884_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 6
------------gtaattgtttgttgaactgcagtg---ctagtattaacataatgtcttctgaaataaataacactt--aatggttatg-gcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
            ||||   |||  |  | |    ||     |  |  || ||| |  |  ||| ||| ||||||||||  |||| |  || |||||||||||||||||||||||||||||| |||||||||||||| |||||||||||||| ||||||||||| |||||||||||| | || ||||| |||||||
gtgcattgttgtgtaaagcttttctctattatgatgagataaacaaaaaaatatttccccctggaattaataacacttttaatgatgttgagcagTGGAACTTCCGTATTGGCTTCACCCCTAAAGAGGGTTTGGTCATCTATTCTGTTGCATATGTTGATGGCAGCCGTGGACGTCGGCCGATAGCTCATAGGC

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 5
-----------gtaattgt-ttgttgaactg-cagtgctagtatt--aacataatgtcttc--tgaaataaataacacttaatggttat-----ggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
           || | | | ||||| |  || || ||  | | |   || ||| |   |||  || ||  | ||    ||  |  || |       |||||||| ||||||||||| ||||| |||||||| ||||||||||| ||||||||||| |||||||||||||| | |||||| || ||| | || |||||||
gtagatgttaagttactatattgtttatttgtcattggaaatgtgcaaagatatttgattcattgtaactactagtcttttttctttctcttttaacagTGGAATTTCCGTATTGGATTCACACCCAAAGAAGGTTTGGTTATATATTCTGTTGCATATGTTGATGGTAGTCATGGACGAAGGCCTGTTGCTCATAGGC

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 4
----------------------gtaattgtttgttgaactgcagtgctagtattaacataatgtcttctgaaataaataacacttaatggttat-ggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
                        |  |  |  |  || |    | | | | |  |  || |    |         |  |   |   || | ||    |||||||||| |||||||| ||||| || | ||| ||||||||||| ||||| ||||| ||| |||||||||| |  || || || ||| |||||||||| |
gatgatagtgtaaaaaatctttccacattctaatcaaattaatttccgaatgtccaactagttctgtaactctgtcactatgttctttgctcattaatagTGGAACTTTCGTATTGGATTCACTCCTAGAGAAGGTTTGGTTATATATTCGGTTGCATATATTGATGGTAGTCAAGGGCGAAGGCCTGTAGCACATAGAC

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 5
--------------------gtaattgtttgttgaactgcagtgctagtattaacataatgtcttctgaaataaataacacttaatggttat-ggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
                    |||  |   ||   ||    ||| | |      | ||    | |  |  | |   | |   ||| |  | || |||||||||| || |||||||| |||||||||| ||||||||||||||| ||||||||||| ||| |||||||||| || || || ||| || | || |||||| 
gtgattacctttttgggaaagtaggttactggaaaatctaagttcaacctgctatatggcttatcatctattt--ttatttttattcctcattggcagTGGAATTTTCGTATTGGTTTCACCCCCAGAGAGGGTTTGGTTATTTATTCTGTTGCATATATTGATGGTAGTCGAGGTCGAAGATCTGTGGCCCATAGGT

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
gtaatt---gtttgttgaactgcagtgctagta-------ttaacat----aatgtcttctgaa-ataaataacacttaatggttatgg----cagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
||| ||   |||| |||| |||   || || ||       ||||  |     |||  | || || |  |  ||   || ||  || |||    |||||||| ||||||||||| ||||| |||| |||||||||||||||| |||||||||| |||||||||||||| || || || |||||| |||| |||||| 
gtacttttggtttcttgagctggcttgttaataaatgtaattaaagtcagagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT

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|67028492|gb|CO457241.1|CO457241
EST:     CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|211180988|gb|FL326379.1|FL326379
EST:     CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCNCCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|67010284|gb|CO439033.1|CO439033
EST:     CTGAGTTTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|211285878|gb|FL038891.1|FL038891
EST:     CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|31348944|gb|CD433301.1|CD433301
EST:     AATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: AATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|47961763|gb|CN844472.1|CN844472
EST:     CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|18661626|gb|BM501497.1|BM501497
EST:     CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT
EST: gi|211285881|gb|FL038894.1|FL038894
EST:     CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAG                         TGNAACTTCCGTATTGGCTTCACCCCCAAAGAGGGNTTGGNTATCTATTCT
genomic: CTGAGGGTCCAAGTTTTCGAATTAATGGCTATTTTGTGGAATGGCAGAAGgtaattgttt ... gttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctagtattaacataatgtcttctgaaataaataacacttaatggttatggcagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
                          aaataaataacactta  TA-rich tract