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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcactaatgacctcaaccatttactgtggcatgccatagcttggttactttcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT

Basic information

species Zea mays
transcript GRMZM2G384439_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g07760.1 (Oryza sativa), 3'ss of exon 3
tcactaatgacctcaacca-tttactgtggcatgccatagcttggttactttcttttgtttttaaa--attagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
  |  |||   |  | | | | |  ||||    |    |     |  | |  ||     || || |  |||| |        |  | |  | || | || ||||||||||||||||||||| || || || || ||||||||||||||||| || || |||||||||||||||||||||||||||||||||||||||||||||
--agaaatattcctagctagtgtgttgtgctcagatcaactcaagccaatcactgagtattgtagagtattaatgttcattgttttcttct-ttatgatgcagGGAGCTCTACAGTAATAACATAAGCGGAACGATACCTAGTGAACTTGGAAACCTCACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT

upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G31320.1 (Glycine max), 3'ss of exon 3
-tcactaatgacctcaaccatttactgtggcatgccatagcttggtt--actttcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
  || |  | |  |         |   ||   |     |  ||| ||  | | ||||| || |||  |     ||  |   |   ||| || ||     | ||||| |||||||| ||||| || | |||| |||| || ||||| || ||||||||||| |||||||| || |||||| ||||| | ||  | |||||||| 
aacaattgtaaagtttttggcagatgatgattttaataatattgatttaaatatctttagtcttttta---tatctttttttgtttattgttttacataatagGGAACTCTACAGCAATAACATTACTGGCCCTATTCCAAGTGACCTGGGGAATCTTACTAACTTGGTGAGCTTGGATCTGTACCTAAATCATTTCACTGGC

upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G36280.1 (Glycine max), 3'ss of exon 3
---tcacta-atgacctcaaccatttactgtggcatgccatagcttggttactt-tcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
     | || |  |  | |  ||    |||     | | |    |   |||  | |||||  | |||| |  |  |   ||     |||| || ||     | ||||| || ||||| ||||| || | |||| |||| || ||||| || ||||||||||| |||||||| || |||||| ||||| ||||| | |||||||| 
gaaatattataaaaatttaggcagaagctg-attttactaatattgatttaaatatctttaatctttatatctttttgatgt----atattgttttacataatagGGAACTTTACAGCAATAACATTACTGGCCCTATTCCAAGTGACCTGGGGAATCTTACTAACTTGGTGAGCTTGGATCTGTACCTGAACCATTTCACTGGC

upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G71830.1 (Arabidopsis thaliana), 3'ss of exon 3
-------tcactaatgacctcaaccatttactgtggcatgccatagcttggt--------tactttcttttgtttttaaaattagtcactgccttc---atatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
        |||| ||| | |||  | || ||      |  |||    |||           |||    ||   ||||  ||||     ||   |      | || | ||||  ||||||||||| |||||||| || || | |||| | || |||||| | ||||| ||||| |||||||| || ||||||||| | ||||| |||| |||| | |||
gtaagttccacttatg-catcatgctttaacaaaacaaatccaagatttgacagaagaagcactggagttaccttttgtaattgaaatctttttaacaagtttcttattttcttacagGGAGCTTTACAGTAACAACATAACTGGCCCGATTCCTAGTAATCTTGGAAATCTGACAAACTTAGTGAGTTTGGATCTTTACTTAAACAGCTTCTCCGGT

upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT1G34210.1 (Arabidopsis thaliana), 3'ss of exon 3
tcactaatgacctcaaccatttactgtggcatgccatagcttggttactttcttttgtttttaaaattagtcactgccttc-----atatcgtgtttttat--acagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
  ||| |  | ||      || | | |   | | | ||  ||   |||    || |  || || | ||  | | |  ||||      | |  |  | |||    ||||||||| || |||||||| || |  ||  |  | || || || ||||||||||| |||||||| || || |||||| | |||||||||| ||||||||||
--actga--atcttgttttttcattttattaggactta--ttcaatacccatttgtcattgtaca-ttgttaattttcttctgagggtgtgatactcttaatggcagGGAGCTTTATAGTAATAACATAACCGGGCCGGTTCCAAGCGATCTTGGGAATCTGACAAACTTAGTGAGCTTGGATCTTTACTTGAACAGCTTCACTGGT

upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0031g01410.t01 (Vitis vinifera), 3'ss of exon 3
---tcactaatgacctcaaccatttactgtggcatgccatagcttggttactttcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
   || || | |   |   |  |    |    | |    | |  || |  |    |||| || ||   |  ||| | ||   |||  |  || || |  ||||||| || || ||||| || || |||||    || |||||||| ||||||||||| |||| |||||| || |||||| | ||||||||||  |||||||||
ctttctctgaagtggtgttctgtgcttttcatcctcaacttgtgtgctgtcaccatttttttatttgcacaagttattgagatcaatt--tgattatg-acagGGAACTTTATAGTAACAACATAAGTGGACAAATTCCTAGTGATCTTGGGAATCTGACAAGCTTGGTGAGCTTGGATCTCTACTTGAACAGGTTCACTGGT

upper sequence: GRMZM2G384439_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0164g00070.t01 (Vitis vinifera), 3'ss of exon 3
----------tcactaatgacctca--accatttactgtggcatgccatagcttggttactttcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
              |  | | ||    |    || ||  |   | | ||   |    |   | |||||||  ||||| ||| | | |       || | ||| | |  |||||||||||||||||||||| || |||||  | || |||||||| ||||||||||| || | |||||| || |||||| | || |||||||  || ||||||
agaatttggccagattctaatcttgtgattgctttcttagatgtactatcattg---tggatccttttgtgcttaaa-ttattaaat-------taacttgtctatg-acagGGAGCTCTACAGTAATAACATAAGTGGACCAATTCCTAGTGACCTTGGGAATCTAACTAGCTTGGTGAGCTTGGATCTTTATTTGAACAGTTTTACTGGT

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|78114109|gb|DV532498.1|DV532498
EST:     TCAGGAACTTTGGTTCCGCAACTTGGCCAGCTCAAAAACTTGCAGTACCT                         GGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAA
genomic: TCAGGAACTTTGGTTCCGCAACTTGGCCAGCTCAAAAACTTGCAGTACCTgtaagttctc ... ttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAA
EST: gi|148946223|gb|EC891520.2|EC891520
EST:     TCAGGAACTTTGGTTCCGCAACTTGGCCAGCTCAAAAACTTGCAGTACCT                         GGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAA
genomic: TCAGGAACTTTGGTTCCGCAACTTGGCCAGCTCAAAAACTTGCAGTACCTgtaagttctc ... ttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAA
EST: gi|71448255|gb|DR829305.1|DR829305
EST:     TCAGGAACTTTGGTTCCGCAACTTGGCCAGCTCAAAAACTTGCAGTACCT                         GGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAA
genomic: TCAGGAACTTTGGTTCCGCAACTTGGCCAGCTCAAAAACTTGCAGTACCTgtaagttctc ... ttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactttcttttgtttttaaaattagtcactgccttcatatcgtgtttttatacagGGAGCTCTACAGTAATAATATCAGTGGCACTATACCTAGTGAACTTGGGAATCTTACAAACTTGGTCAGTTTGGATTTGTACTTGAACAACTTCACTGGT
                                          tgttttt  CT-rich tract
     tcttttgtttttaaaa  TA-rich tract