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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT

Basic information

species Zea mays
transcript GRMZM2G307252_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 3'ss of exon 1
gtaagtgttgttgg--gtagtatagacatcaaattctatatgtattggtggat--gctttgat-tatccatccttt--tatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
|||||| ||  | |   |||   | | |||  ||| |||||    |  |  ||  |   | || | | ||   | |  | |  ||  ||||  |    |  |||||     | ||    |  ||    || | |  | ||| | ||    | ||  |||  | |  || ||| ||||| || || ||| |||| |||||| | ||||| ||||| ||||| ||||| ||||| || |||||||||||||| |||||||||||||||||||||
gtaagtatttatagaaatagcgca-atatcctattttatattgtcttatatattggtggtaatgtgttcagagtctaatgtgcatgtactgctagcctgtcctgcacctagtgatttagtgaatgaaagttttttttttttgcctggtggtaatcttgtgatgtg-actcagGAATGGCGCACAAAAGCTGCTGGGTATCTTGATTGCTATTGGGGAAGCTGTGGCATATGTGCTGTCTGGAATGTATGGTAGTGTGAGCCAACTTGGAACT

upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 3'ss of exon 1
-------------------gtaagtgttgttgggtagta-tagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaa-----ttgactgacatt-gagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                     |     |  |   || |  | || | ||  |||    | || || || |||   ||  || |||  ||| || | |     ||  || ||||  || || |||| |||||  |  || || |||||    ||||||       || ||   | |      | | ||  || ||||| || || || ||||| || ||| | ||||| ||||| ||||| ||||| ||||| || |||||||||||||||||||| |||||||||||||||
gtaagtatttatagaaataacacaatctcctatttattggtggataacatgttcagagtctagtg-tgcatgtactg-ctagccagtcttctacctagtgttttagctaacatcagaaaattgcagagcttccttattctttttctttctcctggtg-------gtaatcttttga-----tgtgacttagGAATGGCGCACAAAAATTGCTGGGCATCTTGATTGCTATTGGGGAAGCTGTGGCATATGTGCTGTCTGGAATGTATGGCAGTGTAAGCCAACTTGGAACT

upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G32680.1 (Glycine max), 3'ss of exon 2
gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                                                           | | ||     ||||    | || |   |  |       || |    | | |||    | ||||||    |||||||   |||   |  || | ||  |  | |||||||||||| |||||| | ||||| ||  | || ||  |||| || || || || |||||||| |||||||||||||| |||||| | |||||||||   
---------------------------------------------------------catgtgcactggcttat-gtctcacagttttcaattttcttaagg----aggttttgcgcttttgtat---atgttttctattgacataatgtcttctcctctctcagAAATGGTGCACAGAAGCTACTTGGCATTTTGATAGCTGTTGGTGAGGCAGTTGCATATGTTCTTTCTGGAATGTATGGTAGTGTGGGTCAACTTGGAGTG

upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G17950.1 (Glycine max), 3'ss of exon 2
gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatc-cttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                                                          ||||   || |  || ||||||  |  | |    |   |||  ||   |||    ||  || |  ||| |||  ||  |||    |||||      ||  |   ||||||||||||| |||||| | ||||| ||| | || ||  |||| ||||| || || |||||||| |||||||||||||| |||||  | |||||||||   
---------------------------------------------------------gttatgtctcacggttgtcaattttccta-aggaggttttgctcagtcatatatgcttccttttcctat-tggcattgacata-atttcat------ctcctctaccagAAATGGTGCACAGAAGCTACTTGGCATCTTGATAGCTGTTGGTGAAGCAGTTGCATATGTTCTTTCTGGAATGTATGGTAGTGTTGGTCAACTTGGAGTG

upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                                         |    |   ||   |   | || ||  ||||   | |  | |  | ||  |       || || |    | | ||| |    ||||| | || ||               | | | |    ||| |||||||| || ||| | || || ||||| || ||  |||| ||||| || || ||||||||||| ||||||||||||||||| ||||||||||||  |
----------------------------------------caggaataactgaagtagatttcaatttttttgctagtctaatttccttatgt------aacctgttctatatatatacaacaatctgattttctc---------------tgcctct----cagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT

upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s1338g00020.t01 (Vitis vinifera), 3'ss of exon 1
gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttg---tatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                                                                        |  || |||   | |||   |  |       | | |  |||   |   |    | |    | | |  |    | ||  | | |   |    | ||| |||||||| || ||| | || || ||||| || ||  |||| ||||| || || ||||||||||| ||||||||||||||||| ||||||||||||  |
--------------------------------------------------------------------caggaataactgaagtagatttcaatttttttgcttgtctaatttccttatgtagcctgttctatatatatacaacaatctgattttctctgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT

upper sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                                                    |    || |   |      | ||||||   |     |  ||  |  |   | |||||     | ||||  ||| |  |    | || |||||       |   ||   | ||| |||||||| || ||  | || || ||||| || ||  |||| ||||| || || ||||||||||| |||||||||||||| || ||||||||||||  |
----------------------------------------------------caggaataactaaagtagatttcaatttttt-----taggagttcaatttccttatgtagcctgttct-atatata-tacaatgatctgattt------tctcttcctctcagGAATGGTGCACAAAAACTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGCGTTAGCCAACTTGGAGTT

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|211517031|gb|FL210552.1|FL210552
EST:     TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCT                         AAATGGTGCGCAGAAGTTGCTGGGTATCCTTATTGC-ATTGGGAGAAGCCG
genomic: TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCTgtaagtgttg ... ttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGG-AGAAGCCG
EST: gi|211517030|gb|FL210551.1|FL210551
EST:     TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCT                         AAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGT
genomic: TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCTgtaagtgttg ... ttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGT
EST: gi|211360870|gb|FL288054.1|FL288054
EST:     TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCT                         AAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGT
genomic: TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCTgtaagtgttg ... ttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGT
EST: gi|211360871|gb|FL288055.1|FL288055
EST:     TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCT                         AAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTG
genomic: TCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCTgtaagtgttg ... ttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
                                           ctttttaccc  CT-rich tract
                                         tacttttta  TA-rich tract