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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaattattagaattgtatttgtttcttggagatctgcgtgccttaatatttttgacccatttgagctaatggaataaaatggaaaccattttgaaggctgcgttgggaccacttgtataaatcagtaaatctaacccctctaatataatttccatgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT

Basic information

species Zea mays
transcript GRMZM2G174644_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g16690.1 (Oryza sativa), 3'ss of exon 6
gtgaattattagaattgtatttgtttcttggagatctgcgtgccttaatatttttgacccatttgagctaatggaataaaatggaaaccattttgaaggctgcgttgggaccacttgtataaatcagtaaatctaacccctctaatataatttccatgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT
                                                                    ||||    | |||  |  |   |||  | |  |  |     ||||  | | || |||       ||||    | |  | |   |||    |||||||||| ||||| |||| || || || ||||||  | |||| ||||| |||||||| || ||||| |||||| ||||||||||||| |||||||||||||||
-------------------------------------------------------------------gtaattttgtcaaactgtgattgtttc-aggattatgaataaaccagctctttatatc-------ctaaatggttttttgt---ttctgcatcacagGACTAGAGTGTCACTTAAGAAGTCCGGTGTCAAGCTGGAATTGGTACCACCACTCACGAAGGTCAACAACTTGATATTTGGGCGTACTTGGGTTGATTCT

upper sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA12G06690.1 (Glycine max), 3'ss of exon 6
gtgaattattagaattgtatttgtttcttggagatctgcgtgccttaatatttttgacccatttgagctaatggaataaaatggaaaccattttgaaggctgcgttgggaccacttgtataaatcagtaaatctaacccctctaatataatttccatgtc-acagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT
                                                        |   |||   |||  |  | |  |||   |    || |||   ||| |||        |||| |  ||  |  | | |||       || |  | ||  ||||   ||| || || ||||| || || | |  |||||| || || |||||||||||||| |  ||||||||||||||||| |||||||| || |||||| ||||||| 
-----------------------------------------------------caaaataattcttgct--taaattttaatcctagttgttctgat--ctgagttatcctgttttgtttttatttgcta-tttaa-------aaaaggacttgtatgtttgcagAACACGTGTGACCCTTAAGAGAGATGGTGTTGTCTTAGATTTGGTGCCACCTCCTACAAAGGTTAACAACCTCATATTTGGCCGAACTTGGATTGATTCA

upper sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G14770.1 (Glycine max), 3'ss of exon 6
gtgaattattagaattgtatttgtttcttggagatctgcgtgccttaatatttttgacccatttgagctaatggaataaaatggaaaccattttgaa---ggctgcgttgggaccacttgtataaatcagtaaat-ctaacccctctaatataatttccatgtc-acagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT
                                                                      ||| || ||||          ||| |     | ||   ||     | || |     |  ||   |  |  |   |  || |  | ||  ||||   ||| ||||| ||||| || || | |  |||||| || || |||||||||||||| |  ||||||||||||||||| |||||||| || |||||| ||||||| 
---------------------------------------------------------------------tatgcaacaaaacaattcttgatttaatcctagttgttctgatctgaattatcctgttttgttgttatttgctatttaaaaaggacttgtatgtttgcagAACTCGTGTGACCCTTAAGAGAGATGGTGTTGTCTTAGATTTGGTGCCACCTCCTACAAAGGTTAACAACCTCATATTTGGCCGAACTTGGATTGATTCA

upper sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 6
gtgaattattagaattgtatttgtttcttggagatctgcgtgccttaatatttttgacccatttgagctaatggaataaaatggaaaccattttgaaggctgcgttgggaccacttgtataaatcagtaaatctaacccctctaatataatttccatgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT
                                                        ||   | ||  |    |   | |  |     |||| |  || |||  |||      |    | | || |   | || |      ||   | | ||   ||| |  ||| || || || || ||||||| |  |||||| ||  | |||||||||||||| |  |||||||||||||||||||| ||||| || || ||||||||||| 
--------------------------------------------------------acttgtatgtacctcagtgtttatttt---tccatctgtaaagctttgtttcctttaaaattctgaa-cgacatatttggtgattcactttttat---cat-ttgcagAACACGTGTTACTCTAAAAAGAGATGGTGTTGTCCTAGATTTGGTGCCACCTCCCACAAAGGTTAACAACCTGATTTTTGGACGGACATGGGTTGATTCA

upper sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv08s0007g00480.t01 (Vitis vinifera), 3'ss of exon 6
gtgaattattagaattgtatttgtttcttggagatctgcgtgccttaatatttttgacccatttgagctaatggaataaaatggaaaccattttgaaggctgcgttgggaccacttgtataaatcagtaaatctaacccctctaatataatttccatgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT
                                      ||   || | | || |||     | |    || ||   ||      | || |||||  |  || |||          ||| | | |            ||  | ||||  |   ||||| |  |||||| || ||||| || |||| |  |||||| ||  | ||||||||||| ||    ||||| ||||||||||| |||||||| || |||||||||||||| 
--------------------------------------cggatctcagt-ttgttgcttgttctc--ttattgttttagttcatagacaattttagaaactacgtg--------ctgtcttattt-----------cctttttaatgaa---tccatat-gcagGACACGTGTGACGCTCAAAAGAGATGGTGTAGTCCTAGATTTGGTGCCCCCTGCTACAAAAGTTAACAACCTCATATTTGGACGTACTTGGGTTGATTCA

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|74244334|gb|DT652248.1|DT652248
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|31349767|gb|CD434124.1|CD434124
EST:     TTGAAGACCAAGCTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGCTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|211409590|gb|FL109891.1|FL109891
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|78025234|gb|DV493621.1|DV493621
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|50328677|gb|CO523803.1|CO523803
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|149078287|gb|EE167049.2|EE167049
EST:     TGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCCAGT-GGAAG                         GACTCGAGTGACACTAAAA
genomic: TGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCC-AGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAA
EST: gi|211454955|gb|FL196639.1|FL196639
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|94475418|gb|EB704376.1|EB704376
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACT
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACT
EST: gi|148995971|gb|EE035219.2|EE035219
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|20507134|gb|BQ279500.1|BQ279500
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTAAAAAA-TCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC
EST: gi|76011657|gb|DT938827.1|DT938827
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACT
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACT
EST: gi|71326507|gb|DR799931.1|DR799931
EST:     TTGAAGACCAAGTTTTTGGGAAAATCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACT
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACT
EST: gi|5499280|gb|AI855147.1|AI855147
EST:     TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAG                         GACTCGAGTGACACTNNNNNNNTCTGGTGTCGTGTTGGATTTGGTGCCACC
genomic: TTGAAGACCAAGTTTTTGGGAAATTCAGTGGAAATTTACCCAGTTGGAAGgtgaattatt ... catgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accacttgtataaatcagtaaatctaacccctctaatataatttccatgtcacagGACTCGAGTGACACTAAAAAAATCTGGTGTCGTGTTGGATTTGGTGCCACCACTAACAAAGGTTAACAACCTGATATTTGGGCGCACTTGGGTTGATTCT
                                         tttccat  CT-rich tract
        tataaatcagtaaat  TA-rich tract