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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggcatctttgctgcaggaagtcgtcgaacatagtcacaatgtttttttaaaaagcagaagtttctaaaccgctgattcctgaaagctgtcacttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG

Basic information

species Zea mays
transcript GRMZM5G841900_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G841900_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g57070.1 (Oryza sativa), 3'ss of exon 2
ggcatctttgctgcaggaagtcgtcgaacatagtcacaatgtttttttaaaaagcagaagtttctaaaccgctgat--tcctgaaagctgtcactt---ttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG
      || |  |||        | |      ||   |  | || | | | |  |    |  | ||| | ||| ||  |  || | |   |  ||    |||||||| || |||||||||||||| ||||| ||||||||||| ||||||||||||||||||||| |||  |||||||||||||||||||||||
---tggttagtggcactggtcaattgtctgctgtt-tagggattatctgagatacttttgcatgtaa-ctgctcataattttgcatgtgctggctgacattgcagGTGACGAAGGTTATGGCTAGGATGGCTTCTGCAGATATAATGTGTGTTGACTCAAAGGCTGTCAAGGAAAAGTTCACTGGCATGATAAG

upper sequence: GRMZM5G841900_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0043g00400.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------------------------------------------ggcat-ctttgctgcaggaagtcgtcgaacatagtcacaatg--tttttttaaaaagcagaagtttctaaaccgctgattcctgaaagctgtcacttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG
                                                                                           ||  |||  ||     | |    | |  |  | | ||    || || |||| || |     ||    |   |  |    |     ||| |  | |   |||| || || |||||||||||||||||||| || ||||| |||||||||| | | ||| || |  ||||||| || ||||| || || ||
gtaagtttcttcaatatttatctctgttcatttattttgatgatctcttgtatatacatgctgcaacttattcatcaatcagcagcattatatgtttttttgggttcaattcaaggatttcattataagaatttcttctaaacagaattgagtttgggatgaccaagatttatcctctggc-ttatgatagGTTACTAAAGTTATGGCTAGAATGGCCTCAGCTGATATAATGTGTGTTGGCCCCAAGTCTGTGCGAGAAAAATTTACTGGAATAATTAG
















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|148939988|gb|EC884719.2|EC884719
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|50328543|gb|CO523669.1|CO523669
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|211118861|gb|FL110176.1|FL110176
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|76012394|gb|DT939564.1|DT939564
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|32796285|gb|CD948521.1|CD948521
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|74244670|gb|DT652584.1|DT652584
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|71428020|gb|DR809070.1|DR809070
EST:     ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: ACAAGGCCCATGGAGCTGTGCCGCAGCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
EST: gi|6827420|gb|AW331063.1|AW331063
EST:     GCCGGGAAGCGTCGTCATCGCCCGA                         GTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC
genomic: GCCGGGAAGCGTCGTCATCGCCCGAgtaagatgct ... acttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaaaaagcagaagtttctaaaccgctgattcctgaaagctgtcacttttgcagGTAACAAAGGTTATGGCTAGAATGGCCTCTGCAGATATCATGTGTGTTGACTCAAAGGCTATCAGAGAAAAGTTCACTGGCATGATAAG
                                           tcactttt  CT-rich tract
               tttctaaa  TA-rich tract