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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtttcctcatgactcccattgatgaatttctgcggaataacatttgtctgacacaactattgttggaacatttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT

Basic information

species Zea mays
transcript GRMZM2G128914_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 3'ss of exon 13
--------------gtaggtttcctcatgactcccattgatgaatttctgcggaa---taacatttgtctgacacaactattgttggaacattt--gtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
               | | |||  | ||  |  ||||   | |||| |  | ||    ||   |  | || |||||| |  |  |  || ||||  |||| |||||||| ||||| || ||||||||||||||||| ||||||||||| |||||||| ||||||||||| ||||| || ||||| |||||||||||||||||||
gtaagctttttttaattgtttttatgatagcatccatacttaaattcccactgagcgctagtgtaagacttacacaaattcttgtcaaatattttggtctccagGTGAATACTGGCGAGAAGGATAACATGATGCAAAGCTTCTTCCTAGCAGAGACTCTCAAGTACCTATACCTCCTGTTCTCTCCTCCATCAGTCATATCCT

upper sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA13G00470.1 (Glycine max), 3'ss of exon 16
-gtaggtttcctcatgactcccattgatgaatttctgcggaataacatttgtctgacacaactattgt------tggaacatt----tgtct------tcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
  | | |  | ||||   | | |  ||  || ||   |     | |||||| |||    |   |||||         |||||     || ||      ||||||||| ||||||| ||| || || ||||||||||||| ||||||  |||| || |||||||||||||| ||  | || || |||||||||||||| ||  
ctttgttcacttcatatattctaaaga--aaattgcacaatgaagcatttgcctgttttatacattgtgcactactaaacataactatggctaattgctcagGTGAATACTGGTGCAAAAGACAATATGATGCAGAGCTACTTCCTTTCAGAAACACTCAAGTACCTCTATCTCTTGTTTTCTCCTCCATCAGTCATTTCTC

upper sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 13
gtaggtttcctcatgactcccattgatgaatttctgcggaataacatttgtctgacacaactattgt------tggaacatt----tgtct------tcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
      ||| |    | |   ||  |  || ||   |     | |||||  | |    |   |||||         |||||     || ||      ||||||||| ||||||| ||| ||||| ||||||||||||| ||||||  |||| || || ||||||||||| ||  | || || |||||||||||||| ||  
-ctttcttcatttcaaatattataaagaaaattgcacaatgaagcatttacccgttttatacattgtgcactactaaacataactatggctaaatgctcagGTGAATACTGGTGCAAAAGATAATATGATGCAGAGCTACTTCCTTTCAGAAACACTTAAGTACCTCTATCTCTTGTTTTCTCCTCCATCAGTCATTTCTC

upper sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 13
lower sequence: Vv09s0054g00230.t01 (Vitis vinifera), 3'ss of exon 8
--------------------gtaggtttcctcatgactcccattgatgaatttctgcggaataacatttgtctgacacaactattgttggaacatttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
                     |   |||| |  | |||  | ||  |  | | || |       |  ||  || || |  ||  |  |||      | |   ||||| || |  |  |  || || || |||||||| ||||||||||| || ||||| ||||| || ||||| || |||||||| ||| | |||||||| || |
cttggctgtgctggttatcattttctttcattgttactttcttttgtttactgctacatctgtgctctttgcttactctgctggttctggg-----tattcacagGTAAATAGAGACGTCAAAGACAATATGATGCAAAGCTTCTTCCTTGCTGAGACACTCAAATATCTCTATCTTCTTTTCTCACCTTCGTCAGTCATTTCAT

upper sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 13
lower sequence: PP1S16_48V6.1 (Physcomitrella patens), 3'ss of exon 14
-----------gtaggtttcctcatgactcccattgatgaa-------tttctgcggaataacatttgtctgacacaactattgttggaacatttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
            || | || |   |||      ||||  ||       ||| | |   | ||  |  | ||       | |||  | |  ||| ||| ||||||| || || || ||||||||| ||| |||||| | |||||||||||||||||| |||||||| ||||||||  | || || ||| |  | || ||  |  
ttgtgcggagcctaagattgcctgtgaga--tgttgaaaaagtatcctttttttctttagaatctgagacttgtgtg-cgatttctcggccatgtgtattcagGTAAATACAGGCGAAAAGGATGACAAGATGCAAACCTTCTTCCTGGCAGAGACCCTCAAGTATCTCTACCTTTTATTTTCTCCTTCCACTGTGATTCCAC

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|60397044|gb|DN229863.1|DN229863
EST:     CATTTGAGAAGAACTCCCGTGTAGAATCTGGATATGTGGGACTGAGAGAT                         GTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAG
genomic: CATTTGAGAAGAACTCCCGTGTAGAATCTGGATATGTGGGACTGAGAGATgtaggtttcc ... ttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAG
EST: gi|60395505|gb|DN228375.1|DN228375
EST:     AAGAACTCCCGTGTAGAATCTGGATATGTGGGACTGAGAGAT                         GTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAG
genomic: AAGAACTCCCGTGTAGAATCTGGATATGTGGGACTGAGAGATgtaggtttcc ... ttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgcggaataacatttgtctgacacaactattgttggaacatttgtcttcagGTGAACACTGGTGAAAAGGATAACATGATGCAGAGCTTCTTCCTGGCAGAGACGCTCAAGTACCTCTACCTACTTTTCTCCCCTCCATCAGTCATATCCT
                                            tttgtcttc  CT-rich tract
         aataacattt  TA-rich tract