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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttgcatccatccttgtttgtacttttattatgtttcagaagtactcgttttcctctcatactgtgacctgtcacctgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG

Basic information

species Zea mays
transcript GRMZM2G063851_T04
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 3'ss of exon 12
gtaattttgcatccatccttgtttgtacttttat-tatgtttcagaagtactcgtttt--cctctcatactgtgacctgtcacctgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
||||| |    |||||||||||||  |||| ||| | ||||||  ||  ||| | |||    | |  | |      |  ||||||| ||||||| |||||||||||||| || |||||||||||||||||||| ||||||
gtaatgtat--tccatccttgttttgacttatatatttgtttcttaaagacttggtttgatttattttccctcataccttcacctgggttcttccagTGATCATGAAGGTGGAAATGTCAGTGCTCATACTGGACATCTG

upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 12
gtaattttgcatccatccttgtttgtacttttattatgtttcagaagtactcgttttcctctcatactgtgacctgtcacctgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
||||||     |||||||||||||    || |||| | ||||  ||  ||| | |||  | || |  |    ||| ||||||||||||||| |||||||||||||| || || ||||||||||||||||| ||||||
gtaattcat--tccatccttgttttagtttctatt-tatttctaaaagacttggtttgatttcttttt----cctttcacctgtgttcttccagTGATCATGAAGGTGGAAACGTCAGTGCTCATACTGGACATCTG

upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 12
lower sequence: AT2G44350.2 (Arabidopsis thaliana), 3'ss of exon 12
-----------------------------------gtaattttgcatccat-ccttgtttgtacttttattatgtttcagaagt---actcgttttcctctcatactgtgacctgtcacc-tgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
                                    ||| |  || |   |  |||||   |   ||| || | ||| |||  |   |      ||  | | | | | ||   |   ||  | | ||  ||||||||||||||||| || ||||| |||||||| |||||||| |||
gtctgtattaattttcgtcacccatgcatgtctccttaaataagcttaattatcttgtaaatttgtttgttctttttaagactttaaatagacctttgtataacattttgcttttctactattttttgctctagTGATCATGAAGGTGGAAATGTTAGTGCTCACACTGGTCACCTG

upper sequence: GRMZM2G063851_T04 (Zea mays), 3'ss of exon 12
lower sequence: Vv13s0156g00180.t01 (Vitis vinifera), 3'ss of exon 12
gtaattttgcatccatccttgtttg-tacttttattatgt------ttcagaagtactcgttttcctctcatactgtgacctgtcacctgtgt-tcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
||   | |  ||   || |  | ||  | |  || |||||      |||  |     || | |  |  |||||   | |    |        | | ||| |||||||||||||||||||||||||||||||| ||||||||||| 
gtgggtgtatatttctcatcttatggcaatgataatatgtaggattttcttattggatcatataacaatcatatgcttattaatttttaaaatgtgttccagTGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTA

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|78179069|gb|DV549442.1|DV549442
EST:     GACGACCAAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|31364242|gb|CD448597.1|CD448597
EST:     GGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|6964715|gb|AW433408.1|AW433408
EST:     GACGACCAAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|76010585|gb|DT937755.1|DT937755
EST:     GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|7145414|gb|AW506895.1|AW506895
EST:     GACGACCAAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|67040702|gb|CO466957.1|CO466957
EST:     GACGACC-AAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
EST: gi|116825307|gb|EC869024.1|EC869024
EST:     GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACAC                         TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
genomic: GACGACCCAAAAATGCTGGAGCTGATGCGGCTCTATGTAACAATTCACACgtaattttgc ... gttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagaagtactcgttttcctctcatactgtgacctgtcacctgtgttcttctagTGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTG
                                            tgttcttct  CT-rich tract