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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactattctgttgagctttttgcaacggggcaatttttatgctatggcaccttgtgactgttatattgagtttgttctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA

Basic information

species Zea mays
transcript GRMZM2G070422_T03
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 3'ss of exon 9
gtaactattctgtt-gagctttttgcaacggggcaatttttatgctatggcaccttgtgactgttatattgagtttgttctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA
|||||||   | || ||| |||     ||   |||  |||| |   ||   || |   |   || ||  ||| | | |    |  ||| ||||||||||| |||||||| ||||||||||||||||||||||| |||                                                   
gtaactacattatttgagatttaaaatacaaagca--ttttgtatcat--tacttaccggtggtaattctgattatatatatttttagATATGGTGGTGGCATGAGTTCAGCTAAAGCAGCTCTTGAGAGTGACACAAAA------------------------------------------------

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 9
gtaactattctgttgagctttttgcaacggggca-atttttatgctatggcaccttgtgactgttatattga--gtttg--ttctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA
     |||| || | |     | | ||      | | || |||| |     |  ||         ||||| |   | |   |  |   | || ||||||||||| ||||||||||| ||||| || || ||||||||||||||                                                 
----gtattttggttatgccatagaaagtccttataattctatgtttcataaatttagactgacaatattcatgatctaaataatgatacagATATGGTGGTGGTATGAGTTCTGCCAAAGCTGCACTGGAGAGTGATACACGA------------------------------------------------

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 10
-----gtaactattctgttgagctttttgcaacggggcaatttttatgctatggcaccttgtgactgttatattgagtttgttctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA
      |   ||| |     |  |  ||  ||        ||  ||   |  | |      |     | || |  |   || |     | || ||||||||||| ||||||||||| ||||| || || ||||||||||||||                                                 
gtatgttggttatgcatagaaagtccttataattctatgtttcataaatttagactgacaatattcatgatctaaataatgat-----acagATATGGTGGTGGTATGAGTTCTGCAAAAGCTGCACTGGAGAGTGATACACGA------------------------------------------------

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 9
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 3'ss of exon 8
------gtaactattctgttgagcttttt---gcaacggggcaatttttatgct--atggcaccttgtgactgttatattgagtttgttctctc---atagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA
       |  || |  |    || | ||    | |||     |||    |  |   | |    |     | | | | |   |  |  |||  ||     ||||||||||| || ||||||||||| ||||| || || |||||||| ||||||                                                
gtaaggatggct-tcttcacaagttattcaaaggaacaaactaatgcacacacataacgatgtcaacacattctcacaagtatctctttcattctgtgcagGTATGGTGGAGGTATGAGTTCTGCCAAAGCTGCACTAGAGAGTGACACACGG------------------------------------------------

upper sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 9
lower sequence: PP1S99_59V6.3 (Physcomitrella patens), 3'ss of exon 8
---------gtaactattctgttgagcttt---ttgcaacggggcaatttttatgctatggcaccttgtgac-tgttatattgagtttgttctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA
          |||  | |  |     | ||   || |   |    |||  |    ||  |  |  ||       |||||    | ||    |  | | || |||||||| |||||||| ||||| ||||| || ||||||||||| |||||                                                 
ctatgcatattaatcacttagaaagtccttaacttcctttgtttaaatcatctctctgagctagtttagagtacgttatgaccatttgtgcccttgacagATATGGTGGAGGGATGAGCTCTGCCAAAGCTGCACTTGAGAGTGACACACGT------------------------------------------------

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|6526869|gb|AW216132.1|AW216132
EST:     GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGG                         GTATGGTGGTGGGATGAGTTCTGCTAA
genomic: GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGGgtaactattc ... tctctcatagGTATGGTGGTGGGATGAGTTCTGCTAA
EST: gi|60396705|gb|DN229571.1|DN229571
EST:     GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGG                         GTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
genomic: GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGGgtaactattc ... tctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
EST: gi|166615957|gb|EG102324.1|EG102324
EST:     AACATACATTGCATCTGAAAGGGCGATTCCTGG                         GTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
genomic: AACATACATTGCATCTGAAAGGGCGATTCCTGGgtaactattc ... tctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
EST: gi|84980240|gb|DW530589.1|DW530589
EST:     GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGG                         GTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
genomic: GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGGgtaactattc ... tctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
EST: gi|31353471|gb|CD437828.1|CD437828
EST:     GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGG                         GTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG
genomic: GGTGCTAGCATCTCTCTAACATACATTGCATCTGAAAGGGCGATTCCTGGgtaactattc ... tctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatttttatgctatggcaccttgtgactgttatattgagtttgttctctcatagGTATGGTGGTGGGATGAGTTCTGCTAAAGCAGCTCTTGAGAGTGATACACGGGTATGGTGTTGCATAATTGTGTGCTTAAATTCTTCCTTTCCCCATGAA
                                        tttgttctctc  CT-rich tract
                            tgttatatt  TA-rich tract