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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTGCATAATCCATCGTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcctactttgctgattgtggtgtagtaaagtttaccatttgctcgtgtctttggcattaggaacctttccatataggttaaggtttctgtattg...

Basic information

species Zea mays
transcript GRMZM2G480607_T04
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G480607_T06 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 6
TGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTGCATAATCCATCGTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagt-----cctactttgctgattgtggtgtagta-aagtttaccatttgctcgtgtctttggcattaggaacctttccatataggttaaggtttctgtattg
 |||||||||||  | || || ||||| || ||||| || |||||||||||||||||||||||||||||||||||||| ||||||||||  || |||||||||| ||     |   ||||||  ||| | | ||| || ||||||  || |      ||| |  | | |||   |   || |  |||   |  | | | | |||  
AGGGCTGCGGTATTTGCATGAAGAATGCAGAGTTGGTTGTATAATCCATCGTGACATGAGACCAAACAACATCCTTGTTACACATGATTATGAGCCACTGgtatggtgtgctctccctttgcctattttagagtaatataagtttttcaatc-----tgtttgggacgttatatattgtttctgatatcatttgttctttttata-

upper sequence: GRMZM2G480607_T06 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA15G02680.1 (Glycine max), 5'ss of exon 5
TGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTGCATAATCCATCGTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcctactttgctgattgtggtgtagtaaagtttaccatttgctcgtgtcttt------ggcattaggaacctttccatataggttaaggtttctgtattg-------------------------
 ||| | || || ||||| || || || || || || ||||| ||||||||||||||| | ||||||||||| ||| |||| |||||||| ||||||||||||  ||  |  |||||    | || |    |  ||    |  |||  | || | | |      ||||  || | | | ||  | |     || ||||     |                           
AGGGTTACGATATCTTCATGAAGAGTGCAGAGTGGGTTGCATTATCCATCGTGACATGCGGCCAAACAACATTCTTATCACTCATGATTTTGAACCACTGgtacggttgtgttttgcctgctttg-tactttgcagccagcagttttatagtttatatatgaaaggcaccagca-cttatctttgtttcaaaaagttttcacttcattaaataattgttaaattcttcaag

upper sequence: GRMZM2G480607_T06 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA13G42760.2 (Glycine max), 5'ss of exon 8
TGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTGCATAATCCATCGTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcctactttgctgattgtggtgtagtaaagtttaccatttgctcgtgtcttt------ggcattaggaacctttccatataggttaaggtttctgtattg---------------------------
 ||| |||| || ||||| || || || || || || ||||| ||||||||||||||| | || |||||||| ||| |||| |||||||| ||||||||||||  ||  |  |||||    | ||   |  |  ||       |||  | || | | |      |||   |  |    |    | |     || ||||     |                             
AGGGTTGCGATATCTTCATGAAGAGTGCAGAGTGGGTTGCATTATCCATCGTGACATGCGGCCTAACAACATTCTTATCACTCATGATTTTGAACCACTGgtagggttgtgttttgcctgctttgtgcttttgcagccaggagttttatagtttatatatgaaaggcgccactacttatcttttttgcccaaaagttttcacttcattaaataattgtgttaaattcttcaag

upper sequence: GRMZM2G480607_T06 (Zea mays), 5'ss of exon 5
lower sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
TGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTGCATAATCCATCGTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtat---agtcctactttgctgattgtggtgtagtaaagtttaccat--ttgctcgtgtc---tttggcattaggaacctt---tccatataggttaaggtttctgtattg-----------------------------------------------------------
 || ||||| || ||||| || ||||| || || || |||||  |||| ||||||||| |||| |||||||||||  |||| |||||||| || ||||||||||   |||       |  |  ||    | |   |||||| | |||  |||  ||||     |  | || | |  |  ||   |    |  || || ||  ||||| ||                                                            
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag

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|211499478|gb|FL286053.1|FL286053
EST:     GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTG                         GTTGGAGATTTCGGCCTGGCGCGATGGCAACCCGATGGAGACATGGGCGTT
genomic: GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcct ... tgcccgacagGTTGGAGATTTCGGCCTGGCGCGATGGCAACCCGATGGAGACATGGGCGTT
EST: gi|32809375|gb|CD961609.1|CD961609
EST:     GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTG                         GTTGGAGATTTCGGCCTGGCGCGATGGCAACCTGATGGAGACATGGGCGTT
genomic: GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcct ... tgcccgacagGTTGGAGATTTCGGCCTGGCGCGATGGCAACCCGATGGAGACATGGGCGTT
EST: gi|29129926|gb|CB380630.1|CB380630
EST:     GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTG                         GTTGGAGATTTC-GCNCTGGCGCGATGGCAACCCGATGGAGACATGGGCGT
genomic: GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcct ... tgcccgacagGTTGGAGATTTCGGC-CTGGCGCGATGGCAACCCGATGGAGACATGGGCGT
EST: gi|32827128|gb|CD966806.1|CD966806
EST:     GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTG                         GTTGGAGATTTCGGCCTGGCGCGATGGCAACCTGATGGAGACATGGGCGTT
genomic: GTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtatagtcct ... tgcccgacagGTTGGAGATTTCGGCCTGGCGCGATGGCAACCCGATGGAGACATGGGCGTT