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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagctctatgctttggaaacatttctgcatgggattttttaattaatttctcccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC

Basic information

species Zea mays
transcript GRMZM2G006429_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006429_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g18970.1 (Oryza sativa), 3'ss of exon 3
gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagctctatgctttggaaacatttctg--catgggattttttaattaatttctccctt-ttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
     |    |||||     || ||  || | |    ||| ||||||||        || ||||| |  || |||||||    ||||| |||  |    ||| |  |  || ||||||||||| |||||| ||||||||||||||||||||||||||||||| || |||||||||||||| || || ||||||||||| || ||||||||||||||||
-----gtaagctgctagtaaatattcttggaaagaacttcaaggataca-------ttcaatgctgtcaaagcatttctcattatgggttttgatgtgaaatcttgctgttgttttagGTGGGACCTCTCAGATGCTGGCCAGGTGGATTGTGCCTTTCAAGATCGATTGGGGATACTGACGTTGGGGAGTTCATTGTGCCAATTCCACATGTCAAGC

upper sequence: GRMZM2G006429_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G41810.2 (Glycine max), 3'ss of exon 4
gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagctctatgctttggaaacatttctgcatgggattttttaattaatttctccct---tttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
                                        || ||| ||||   | |  | ||||||  ||  |    ||| |    ||  |   ||   ||  |  |   ||| ||||| || ||||| || ||||||||||||||||||||||| || || || || || || || || || || || || ||||| || || |||||||| ||||
---------------------------------------gtatgatgcaat--caccattgtgctttctaataaagattgcttaaacttagtagttttggtttgctttatgtttatagGTTGGGCCTCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCTAGATCTATAGGTGACACAGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGC

upper sequence: GRMZM2G006429_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G29060.1 (Glycine max), 3'ss of exon 4
gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagct--ctatgctttggaaac----atttctgcatgggattttttaattaatttctcccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
                                             |||||| | | ||  |||| | ||   ||     | || | ||   |  | |||   |   ||    | | | ||||| || ||||| || || ||||| ||||||||||||||||| || |||||||| || || || || || || || ||||| || || |||||||||||||
--------------------------------------------gtacaatgtaatctttctattcctttctaatcaggactttttcactagcctgttttggttccttaatacatctatagGTAGGGCCTCTTCGCTGTTGGCCTGGTGGATTGTGCCTTTCTAGATCAATTGGTGACACAGACGTGGGAGAATTTATTGTCCCAATACCACATGTCAAGC

upper sequence: GRMZM2G006429_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G38270.1 (Glycine max), 3'ss of exon 4
gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagctctatgctttggaaacatttctgcatgggattttttaattaatttctcccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
                                      | | |  ||   | |    ||  | ||    |    ||| |   | |  | ||||  ||  ||  | | ||| | |||| || ||||| || |||||||| ||||||||||||||||| || |||||||| || || || || || || || ||||| || || |||||||| ||||
-------------------------------------gtatggtgtaatctttatattcctttctaatcaggactttttaactagcctgttttggttccttaatacatttat-agGTAGGGCCTCTTCGCTGCTGGCCTGGTGGATTGTGCCTTTCTAGATCAATTGGTGACACGGACGTGGGAGAATTTATTGTGCCAATACCACATGTTAAGC

upper sequence: GRMZM2G006429_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA03G39260.1 (Glycine max), 3'ss of exon 4
gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagctctatgctttggaaacatttctgcatgggattttttaattaatttctcccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
                      | ||||| |      || |  | |     |||   ||||    |    |   |||   | | | | ||||   ||   || |    ||| ||||| || ||||| || ||||||||||||||||||||||| || || ||||| || || || ||||| || || || ||||| || || |||||||| ||||
---------------------gtatgatgcaatcaccttttgcgct----catgctttctaa---taaagattgtttaaacttagtagttttggtttgcgttat---gtttatagGTTGGGCCTCTTCGCTGCTGGCCAGGTGGATTGTGCCTATCCAGATCAATAGGCGACACGGATGTGGGAGAATTTATTGTGCCAATACCACATGTAAAGC

upper sequence: GRMZM2G006429_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0060g01580.t01 (Vitis vinifera), 3'ss of exon 4
----gtagtgctcactgctcagtcattttgatgaagaaggattctaggatacaatatgagctctatgctttggaaacatttctgcatgggattttttaattaatttctcccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
        |  |   ||| ||  ||  |  | |  ||| ||   |   ||  | |||     |  ||  ||| |      ||| ||||||     | ||   || | |    ||| ||||| || || ||||| |||||||| |||||||| || || || ||||||||||| || || ||||| || || |||||||| || || |||||||| ||||
gtataacatatttgatgcccatacaactcaaagctgaaagaaattttaattgattat---tcccttgtcttgaa------tcttcatggg-----tcaa---atgtatatggtttgtagGTTGGCCCACTCCGCTGCTGGCCTGGTGGATTATGTCTCTCCAGGTCAATTGGTGACACAGATGTGGGAGAATTCATTGTCCCAATACCACATGTTAAGC

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|71314548|gb|DR793896.1|DR793896
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
EST: gi|19822432|gb|BQ048456.1|BQ048456
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
EST: gi|31354352|gb|CD438709.1|CD438709
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
EST: gi|71331543|gb|DR802616.1|DR802616
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTTCA-GGTCAAT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTT-CAAGGTCAAT
EST: gi|149079564|gb|EE168552.2|EE168552
EST:     CAGCGAGTGGAGGAGAAGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCCAGGTCAATT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
EST: gi|94472234|gb|EB701192.1|EB701192
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGGTCA-T
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGG-TCAAT
EST: gi|149045413|gb|EE047836.2|EE047836
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAGGGTCA-TT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
EST: gi|74233458|gb|DT641372.1|DT641372
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
EST: gi|149108127|gb|EE292476.2|EE292476
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGC
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGC
EST: gi|26455794|gb|CA827377.1|CA827377
EST:     CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAG                         GTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT
genomic: CAGCGAGTGGAGGAGAGGTCAGCCGGCTTAATCTCTGTGGTGGACAGGAGgtagtgctca ... ccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctttggaaacatttctgcatgggattttttaattaatttctcccttttttagGTGGGTCCTCTCCGATGCTGGCCAGGTGGATTGTGCCTTTCAAGGTCAATTGGGGATACTGATGTCGGCGAGTTCATTGTACCGATTCCACATGTCAAGC
                                 aattaat  putative branch site (score: 3)
                                   ttaatttctccctttt  CT-rich tract
                          attttttaattaattt  TA-rich tract