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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttgtccttttctatgtgagcatataatttcttttggaaagtgtttggttacattattggtgaatttgcatttttattgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC

Basic information

species Zea mays
transcript GRMZM2G146514_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g28270.1 (Oryza sativa), 3'ss of exon 3
--attttgtcctttt---ctatgtgagcatataatttcttttggaaagtgtttggttacattattggtgaatttgcatt-tttattgt-tttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
  || | |    ||    || | |     ||||  || | || ||      || |   |||| ||      | || ||| ||||||||  ||||       ||| |||| ||| |||||||||| || ||||| ||||||||||| ||||||||||| || ||||||||||| |||||||| ||||| ||||| ||| ||||||   
taatgtagctgcttaaagctgtctattagtatatcttatctttgacgac--ttagcagcattgttt-----tctgtattatttattgtgcttcaccttttttttcagTATTATTTGAAGACTGGAACATGCAAATTTGGAGCAACATGCAAGTTTCACCACCCCCGAGAAAAAGCTGCAATTGCAACCCGAGTACAGCTGAATGCTT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g21700.1 (Oryza sativa), 3'ss of exon 3
attttgtccttttctatgtgagcatataatttcttttggaaagtgtttggttacattattggtgaatttgcatttttattgttttcatacc-----cccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
 || || |   |  | ||  |   ||  ||||  |   |||| ||  |  ||||||   |  ||||  |  ||  |||  ||| |||||       | |||| |||||||  |||| ||||| |||||||||||||| ||||| |||||||||||||| ||| | || ||||||||| | ||||  || || ||||| ||||  |
-ttatgcctcatcttttgatattctactattttgtactgaaactggctt-ttacatg--tcatgaacgt-tatgcttagagttctcatattttctgctctttcagTACTACTTGAAAACTGGAACGTGCAAGTTTGGTGCAACATGCAAGTTTCATCACCCCAGGGAGAAGGCTGCACTTGCAAACCGTGTACAGTTAAATGTTC

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G36140.1 (Glycine max), 3'ss of exon 3
------------------attttgtccttttctatgtgagcatataatt-tcttttggaaagtgtt--tggttacattattggtgaatttgcattttta--ttgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
                  |  |||| ||    |    ||||||  | || | | |||| | |  ||  |  ||  |  |||    |||   |||       || ||| |        || ||||||||||||||||| || |||||||| |||||||| || ||||| |||||||||||   |||  ||||||  || ||     |||||   || |||    
gcacgtactagtttctcaaccttgtactgcagtgca-gagcattaatttgtatcttggcatgcattctttatttaaacattcaccaatcatcataacagagttttttccccctgtttttctagTACTATCTGAAGACAGGAACGTGCAAATTTGGAGCCACATGCAAATTTCATCATCCTAAAGATCAGGCTGGGATTGCTGGAAGAGTTGCCTTAAATATTT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G31370.3 (Glycine max), 3'ss of exon 3
------------attttgtcctttt----ctatgt-gagca------tataatttc---ttttggaaagtgt-ttggttacattattggtgaatttgcatttttat-tgttttcataccccc----ttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
             | |   ||||||    |  ||  |||||      | ||||||    | |||| | |  | ||  ||  |  |||    |||   |||    |  ||||||  | ||||     ||  |||||||||||||||| || || ||||| |||||||| || ||||| |||||||||||   |||  |||||| ||| ||     |||||   || |||    
gcatgtactagtttctcaaccttttactgcagtgcagagcactaatttgtaattttgtatcttggcatgcatctttatttaaacattcaccaatcgtcataacaaagtgttttttttcccctgtctttccagTACTATCTGAAGACAGGAACATGCAAATTTGGAGCCACATGCAAATTTCATCATCCTAAAGATCAGGCTGGAATTGCTGGAAGAGTTGCCTTAAATATTT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G38650.2 (Glycine max), 3'ss of exon 3
---attttgtccttttctatgtgagcatataatttcttttggaaagtgtttggttacattattggtgaatt-tgcatttttattgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
   ||||||  |||    || | || |||||  |  | |  | |  |||    ||| |   |      |||    ||  | |||   ||  |    | ||  |||||||| ||||||| || || ||||| |||||||| || |||| ||||||||||||  |||| |||||||  || ||     |||||    |||||    
ctaattttggtcttg---atat-agtatatatatcatatatgtatttgtgcatttaaacattcaccatattacaaatactgattcccttttttgtgctttccagTACTATTTGAAGACAGGAACTTGCAAATTTGGAGCCACATGCAGGTTTCATCATCCTAGAGACAAGGCTGGGATTGCTGGAAGAGTTGCCATGAATATTT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G47660.1 (Glycine max), 3'ss of exon 3
--attttgtccttttctatgtgagcatataatttcttttggaaagtgtttggttacattattggtgaatttgcatttttattgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC-
  ||||||  |||      ||    |||| || | | |      |  |||    |||||     | | |    ||  | |||   ||  |    | ||  |||||||| ||||||| || || ||||| |||||||| || |||| ||||||||||||  |||| |||||||  || ||     |||||   ||||||     
taattttggtcttgatatagtttatatatcatatatgtacttgtgcatttaa--acattcaccat-attacaaatactgattcccttttttgtgctttccagtACTATTTGAAGACAGGAACTTGCAAATTTGGAGCCACATGCAGGTTTCATCATCCTAGAGACAAGGCTGGGATTGCTGGAAGAGTTGCCTTGAATATTTT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT3G02830.1 (Arabidopsis thaliana), 3'ss of exon 3
------------attttgtccttttctatgtgagcatataatttct-tttggaaagtgtttggttacattatt--ggtgaatttgcatttttattgtttt-catacccccttt---tagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
              |||||||  || ||  ||| ||| |  |     ||||| || ||  |  |    |||        || ||    |||| | || ||  ||       ||    |||||||| ||||||| || || ||||||||||||| ||| || ||||||||||||||  |  | || ||||  || ||     ||||     | |||    
gtaagaatctttggtttgtccagttgtagatgaacattttgtcaaggtttggtaattgagtcatcttcttacacaaactaacttaacattttgtggtgttgtatgttttggttgcgcagTACTATTTGAAGACAGGAACCTGCAAGTTTGGAGTAACATGTAAGTTTCATCATCCAAGGAACAAAGCTGGGATTGCTGGAAGAGTCTCTCTCAATATGT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G16540.2 (Arabidopsis thaliana), 3'ss of exon 3
attttgtccttttcta--tgtgagcata-taatttcttttggaaagtgtttggttacattattggtgaatttgcatttttattgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGT-TCAGTTGAATGAAC
  |   ||  |||| |  |   | |||| |||| |||| | |        |  | ||||| |     |  ||  |||||| ||||     |    |  |  |||  ||||||||||| || || ||||| || ||||  ||||||||||||||||||||  |  | || ||||  || |      | || |||||| ||||   
-gtagctctgtttcgaattactatcatagtaatgtcttctag--------ttatcacattgtctcaaagcttctatttttgttgt-----tgtgtctgtgcagTTTTATCTGAAGACAGGGACCTGCAAATTCGGAGTGACTTGCAAGTTTCATCATCCTAGGAACAAAGCTGGTATTGATGGAAGTGTATCAGTT-AATGTCT

upper sequence: GRMZM2G146514_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 3
attttgtccttttctatgtgagcatataatttct-tttggaaagtgtttggttacattattggt-gaatttgcatttttattgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
 |||  |    |  |||    |  ||  || ||| |||    | | |||   ||  || |  || | |   |       |||   ||   |      |  |||||||  ||||||| || || |||||||||||||| || |||||||||||||||||  |||| ||||||| ||| ||     |||||   || |||    
-tttaatgtcctcatat-catgtgtaagatctctattttctcatttttttaatatgttctgagttggaagagttgacaaatttgctttgaatggttctccagTACTACTTGAAGACAGGAACTTGCAAGTTTGGAGCCACATGCAAGTTTCATCATCCTAGAGACAAGGCTGGAATTGCTGGAAGAGTTTCTTTAAATATTT

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|56691598|gb|CX129501.1|CX129501
EST:     CAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAA                         TACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCAT
genomic: CAAGAATGAAGGGAGAATATCCTCAAAGAATTGGGCAGCCTGAATGTCAAgtgagattcc ... ccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggttacattattggtgaatttgcatttttattgttttcatacccccttttagTACTATCTGAAGACTGGCACGTGCAAGTTTGGAGCAACTTGCAAGTTTCATCATCCCCGAGAAAAGGCTGCAATGGCAACTCGAGTTCAGTTGAATGAAC
                                    ttttcatacccccttt  CT-rich tract
                   aatttgcatttttatt  TA-rich tract