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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttgcatccatccctgtttctatttttgttatgtctcggaagtacttgttgttttcccctcatactgtgacttgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG

Basic information

species Zea mays
transcript GRMZM2G064023_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064023_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 3'ss of exon 12
gtaattttgcatccatccctgtttctatttttgt-tatgtctcggaagtacttg------ttgttttcccctcatactgtgacttgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
||||| |    ||||||| |||||  | || | | | ||| ||  ||  |||||      ||  ||| |||||||||  | || || ||||||| |||||||||||||| || |||||||||||||||||||| ||||||
gtaatgtat--tccatccttgttttgacttatatatttgtttcttaaagacttggtttgatttattttccctcataccttcacctgggttcttccagTGATCATGAAGGTGGAAATGTCAGTGCTCATACTGGACATCTG

upper sequence: GRMZM2G064023_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 12
gtaattttgcatccatccctgtttctatttttgttatgtctcggaagtacttgttgttttcccctcatactgtgacttgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
||||||     ||||||| |||||   ||| | || | | ||  ||  ||||| | |  |  | |  | || | || |||||||||| |||||||||||||| || || ||||||||||||||||| ||||||
gtaattcat--tccatccttgttttagtttctatt-tatttctaaaagacttggtttgatttctttttcctttcacctgtgttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG

upper sequence: GRMZM2G064023_T01 (Zea mays), 3'ss of exon 13
lower sequence: AT2G44350.2 (Arabidopsis thaliana), 3'ss of exon 12
---------------------------------------gtaattttg--catcc-atccctgtttctatttttgttatgtctcggaagtacttgttgttttcc-cctcatactgtgact-tgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
                                        |||  ||    |||   |   | | | | || || ||| | ||   ||       |||| |  |   |     |   ||| | | ||  ||||||||||||||||| || ||||| |||||||| |||||||| |||
gtctgtattaattttcgtcacccatgcatgtctccttaaataagcttaattatcttgtaaatttgtttgttctttttaagactttaaatagacctttgtataacattttgcttttctactattttttgctctagTGATCATGAAGGTGGAAATGTTAGTGCTCACACTGGTCACCTG

upper sequence: GRMZM2G064023_T01 (Zea mays), 3'ss of exon 13
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 3'ss of exon 12
gtaattttgcatccatccctgtttctatttttgttatgtctcggaagtacttgttg-----ttttcccctcatactgtgacttgtgttc--------ttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
||   | |  ||   ||    ||       |  | || | | |||  | ||| |||     | |  |  |||||   | | |  | ||         ||| |||||||||||||||||||||||||||||||| ||||||||||| 
gtgggtgtatatttctcatc-ttatggcaatgataatatgtaggattttcttattggatcatataacaatcatatgcttattaatttttaaaatgtgttccagTGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTA

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|6020672|gb|AW065480.1|AW065480
EST:     GGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|31361054|gb|CD445411.1|CD445411
EST:     GACGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GATGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|32859373|gb|CD999054.1|CD999054
EST:     GATGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATAC
genomic: GATGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATAC
EST: gi|5915419|gb|AW053060.1|AW053060
EST:     GACGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GATGACCCTAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtctcggaagtacttgttgttttcccctcatactgtgacttgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
                                            tgttcttct  CT-rich tract
                  ttgtttt  TA-rich tract