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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT

Basic information

species Zea mays
transcript GRMZM2G052389_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g01390.1 (Oryza sativa), 3'ss of exon 8
-------gtagtaggttctggtctgatggtctagtcactatatata-taaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
         |       ||||||  |  |||||| || | ||||||   |   ||  ||||| ||    | ||||||| |  ||   |     | | | | |  ||||||||| |||||||||||||||||| ||||||||||||||||||||| |||||||||| ||||||||||| ||||||||  |||||||||| ||||||||||
tgagtttacacgcatagctggtccaacagtctagccagtttatataacgagtgaattacacaatt----ttcattgttctcaaacctg-----tttttttttaatgcagGATGGAATTGAAGAATGCCGAAAACTCTGTGGTGGACATGGTTACCTGAACAGCAGCGGGCTTCCTGAATTGTTTGCTATCTATGTTCCTGCTTGCACTT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA17G15320.1 (Glycine max), 3'ss of exon 9
gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagat---ttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
|   |   | ||  | | || || |  | | |||||   |   ||     || | ||  ||| | |||  ||| ||    |  |   ||  ||    ||||||||||| |||||| |||||||| || || || ||||| ||||||||| |   ||||||||| || |||||||| ||||| |||||  ||||  | ||||| |
gcttttattacta-ttttatagtatcct-attatatg-gtgttcactttgca-acttttaattctttgaagttcaaattaaattaagtttacttaaatttgcagGATGGAATTGAGGAATGCCGCAAACTATGCGGTGGCCATGGTTACCTTTGCAGCAGTGGTCTGCCTGAGTTATTTGCAGTCTACATTCCTTCCTGCACAT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA05G04940.1 (Glycine max), 3'ss of exon 8
gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccatt---gttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
       ||| || |   ||       | |   |||      |||  |    || || |||    ||    || ||| | |      ||   |    ||||||||||| |||||| |||||||| || || |||||||| ||||||||| |   ||||||||| || |||||||| ||||| |||||  ||||  | ||||| |
----atcgttgtgcttatattactattttatagtatcctattacatggtgttcacttgcaacttcttttaattctttgaagttcacattaaattaaatttgcagGATGGAATTGAGGAATGCCGCAAACTATGTGGTGGCCATGGTTACCTTTGCAGCAGTGGTCTCCCTGAGTTATTTGCAGTCTACATTCCTACCTGCACAT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA11G03800.1 (Glycine max), 3'ss of exon 8
-gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
  |   |     ||   || |  |   |||  | |   ||| | |    |  ||  | |   |  ||  |   |||||   | |||    ||  |||  ||||||| ||||||||||||||| || || |||||||| ||||||||| |    |||||||| || |||||||| ||||| || |||||||| || ||||| |
catttaaatggatgaagtgtttctgctgtcgttgtgc-tattatcctttgtaactctgaattttgatgttcaattaagtttaaattaacttcaatttc-cagGATGGAATTGAAGAATGCCGTAAACTATGTGGTGGTCATGGTTACCTTTGTAGCAGTGGTCTCCCTGAGTTATTTGCTGTTTATGTTCCTGCCTGCACGT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA14G14990.1 (Glycine max), 3'ss of exon 7
-gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
  |   |     ||   || |  | | |||  | |   ||| | |    |  ||  | |   |  ||  |   |||||   | |||    ||  |||  ||||||| ||||||||||||||| || || |||||||| ||||||||| |    |||||||| || |||||||| ||||| || |||||||| || ||||| |
catttaaatggatgaagtgtttctgttgtcgttgtgc-tattatcctttgtaactctgaattttgatgttcaattaagtttaaattaacttcaatttc-cagGATGGAATTGAAGAATGCCGTAAACTATGTGGTGGTCATGGTTACCTTTGTAGCAGTGGTCTCCCTGAGTTATTTGCTGTTTATGTTCCTGCCTGCACGT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA01G41600.1 (Glycine max), 3'ss of exon 8
--gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
   ||   || |   || |  |  | | ||   | |     ||  |   | |    |  ||  |  ||  |   |||| |  | |||    ||  |||  ||||||| ||||||||||||||| || || ||||| || ||||||||| |    |||||||| || |||||||| ||||| || |||||||| || ||||| |
atttaactggatgaagtat--ttctgttgtggttgtgctattatcctttgtaactctgaactttttatgttcagttaaagttaaattaacttcaatttc-cagGATGGAATTGAAGAATGCCGTAAACTATGTGGCGGTCATGGTTACCTTTGTAGCAGTGGTCTCCCTGAGTTATTTGCTGTTTATGTTCCTGCCTGCACGT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
             || || |  || | ||   |  |||  ||| ||     | |||  ||    |    |||||         ||| |   || ||   ||||||  ||||||||||| || ||| | |||||||||||||| ||||||    | |||||||||||||| |||||||| || |||||||| |||||||| |
-------------gtatgctt-tcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttt-------tttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT4G16760.2 (Arabidopsis thaliana), 3'ss of exon 8
------------------------------------------------------------------gtagtaggttctggtctgatggtctagtcactatat-atataaacaaaggacacatttacaatccattgtt--gtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
                                                                    |   | |       ||   || |  || ||   | | ||        |    ||||| | |  |   ||  | ||||||| |       || |    |||||||||  ||||||||||| || ||| | |||||||||||||| ||||||    |||||||||| || ||| ||||||| || |||||||| || ||||| |
gtaagttccagagctgatcctttatactcactagactagattgattggtttcgtttctctgaggatccaactgctcacatgttggaagtttgttccctccttgacattgtttggaggtgtatttagagttgaaaattcagcttaagggta-------ctattgggtgcagGATGGCATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGCAGTGGGCTCCCCGAGCTGTTTGCTGTATATGTTCCTGCCTGCACAT

upper sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv00s0389g00020.t01 (Vitis vinifera), 3'ss of exon 6
----gtagtaggttctggtct-gatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
     || |  || ||| |||  || | |||      |   |  | |    || |   ||           || |  ||    |     ||| || || || | ||||||  ||||||||||||||||| || |||||||| ||||||||| |    || ||||||||||| ||||| ||||| || ||||| || || || || |
tgaactattgagtcctgatcttaatagcctacaattcaagcaagttatactagtaggtatgcttggagtgctgctaattttctg-----ttcactttgatt-gtagGATGGGATTGAAGAATGCCGAAAACTATGTGGTGGCCATGGTTACCTATGTAGTAGTGGGCTTCCCGAGTTATTTGCCGTGTATGTCCCTGCCTGTACAT

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|211187171|gb|FL164710.1|FL164710
EST:     TCCCCCCTGTTTAACTTGACTGTATTCCTGAAGCTCCATTCCATTTTAAG                         GATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAAC
genomic: TCCCCCCTGTTTAACTTGACTGTATTCCTGAAGCTCCATTCCATTTTAAGgtagtaggtt ... tgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT
                                     tttctctctgttttgc  CT-rich tract
       atttacaat  TA-rich tract