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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttattctgttatcatttatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA

Basic information

species Glycine max
transcript GLYMA06G13760.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g37520.1 (Oryza sativa), 3'ss of exon 4
cttattctgttatcatttatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
    |    ||||||| |         ||       |  ||| || ||    || || |  |     |    ||    |  |   || ||      |||||||||||||| || ||||| || || |||||||| || ||||| |||||||||||||| ||||| || || ||||||||||| |||||||||||||||||
---gtagatttatcatgtccaccatagcaaagggcataatgtttttttaaatatttttttttattttaacatatcaaatggtttctt-ttgaaatttcagATGAAAAGATTGCATTGCTTGGAGCTATACAGTCACTGTTTGAGGGTTCAATGTACACTTTTGTTTTCCTGTGGACTCCTGCTTTGAGCCCAAATGATGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g02380.2 (Oryza sativa), 3'ss of exon 4
cttattctgttatcatttatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctgcctc-agATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
          |||  || | |  | ||  |   ||| |   ||  |   |   |||   | ||  |||      || | ||  ||| |||     ||  ||||||||| || || || ||||| |||||||||||  | ||||| || |||||||| || || || || || |||||||| || |||||||||||||| ||
---------gtatgcttaactcatcttattggattgacagataaacagatatgtatcaaagttgacaatcggcattctgacatcatccttgaaatctttagATGAAAAAATTGCATTACTGGGAGCCATACAGTCATTGTTTGAGGGCTCAATGTATACTTTCGTCTTCCTCTGGACTCCGGCGTTGAGCCCAAATGAAGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G021514_T01 (Zea mays), 3'ss of exon 3
cttattctgttatcatttatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctg--cctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
          |||  || |    |  |||||      |   ||  |   |    ||  |    ||   |||    || ||  ||  ||  | ||  | |||||||||||||| || || ||||| |||||||||||  | ||||| || || |||||||| ||||| || ||||||||||| |||||||| |||||||| ||
---------gtatgcttaacccat-ctcatcagactgcgcataaccaaatatgcat-atgaaacctgtgtttgccttctaacgctgtccatttgatcttcagATGAAAAGATTGCATTACTGGGAGCCATACAGTCATTGTTTGAGGGCTCCATGTACACATTTGTCTTCCTATGGACTCCAGCATTGAGTCCAAATGAAGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G077669_T01 (Zea mays), 3'ss of exon 4
cttattctgttatcatttatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctgcct-cagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
  ||| || ||| |   | |  | |   |      |      ||  || | |||||   || | |  | ||  ||| | ||  | | |  |    || ||||||||||||| || || ||||| |||||||||||  | ||||| || || |||||||| ||||| || ||||||||||| || |||||||||||||| ||
-gtatgct-ttagcccgtctcatcaga-acgcagagaaccaaatatttatgcatatgaaacctgc--atttgttttctaacatcgtccactggatcttcagATGAAAAGATTGCATTACTGGGAGCCATACAGTCATTGTTTGAGGGCTCGATGTACACATTTGTCTTCCTATGGACTCCAGCGTTGAGCCCAAATGAAGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G064563_T03 (Zea mays), 3'ss of exon 4
cttattctgttatcatttatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctg--cctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
          |||  || |    |  |||||      |   ||  |   |    ||  |    ||   |||    || ||  ||  ||  | ||  | |||||||||||||| || || ||||| |||||||||||  | ||||| || || |||||||| ||||| || ||||||||||| |||||||| |||||||| ||
---------gtatgcttaacccat-ctcatcagactgcgcataaccaaatatgcat-atgaaacctgtgtttgccttgtaacgctgtccatttgatcttcagATGAAAAGATTGCATTACTGGGAGCCATACAGTCATTGTTTGAGGGCTCCATGTACACATTTGTCTTCCTATGGACTCCAGCATTGAGTCCAAATGAAGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: AT4G27720.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------cttattctgttatcatttatttttattcatctcttgt------cttgtattcttgttcatattgtacttcccaa-----gttcattttttactgcattctt----tctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
                              ||| |  |  |  || |  || |   ||| ||||        ||| || |  |||  ||||| ||     |     ||    |  | ||   ||| ||      |   |||||||| ||||||||  |  ||||||| || ||||| ||||||||||| || ||||| || ||||| || || |||||||||||  | || || || |||||
gtgagtagaaaatcttgttgccccttttagattttacttcctgttttgcttctctgtctattgtgatggttctgtgttttgtttctcattgtcctcattgaagaatgtatgatggtaacaaaatttttgtatcttttatcagATGAGAAGATAGCACTATTGGGTGCTATCCAGTCGCTCTTTGAAGGATCTATGTATACTTTTGTATTCCTCTGGACTCCTGCTCTAAGTCCGAACGATGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g02420.t01 (Vitis vinifera), 3'ss of exon 4
-cttattctgttatcatttatttttattcatctcttgt-cttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
   |||| | ||    | |  ||| ||| || |  | | |||| |   || ||  |  | | |||   |  || || |  |  |   ||   | ||  |||||||| || ||||| ||||||||||| ||||||||||| |||||||||||||||||||| |||||||| || ||||||||||| ||||| || ||||| ||
atatattttctttctttcttctttgatttattttatatgcttggaagtttcttttttattttctttttattttaatat--tgttatgtttcatgtggatcagATGAGAAAATAGCATTGCTGGGTGCAATACAGTCTCTATTTGAAGGTTCAATGTACACATTTGTGTTCCTTTGGACTCCTGCTTTGAGTCCGAATGAAGA

upper sequence: GLYMA06G13760.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv16s0098g01290.t01 (Vitis vinifera), 3'ss of exon 4
cttattctgttatcatt-tatttttattcatctcttgtcttgtattcttgttcatattgtacttcccaagttcattttttactgcattctttctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
| |  | || ||||    |   ||||| ||||| ||  ||  | || |   |  | |  | ||| |   |  | |||  || |   ||   | ||  |||||||| || || || ||||||||||| || |||||  | |||||||| |||||||| || |||||||| || |||||||||||  | ||||||||||| ||
cattgtttgctatcccaatgggtttatccatctgtttcctcatcttttcagttttttcctcctttcttggagc-tttagtattatgtttcatgtggttcagATGAGAAAATTGCGTTGCTGGGTGCAATTCAGTCGTTGTTTGAAGGCTCAATGTATACTTTTGTGTTCCTCTGGACTCCTGCTCTAAGCCCAAATGAAGA

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|254342363|gb|GR858525.1|GR858525
EST:     CAAGGACTTGCTTACCCAATTTAGGG-TGCTGCTGTGGCCATTGCTTCTG                         ATGAAA-GATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGA-G-TTCA-
genomic: CAAGGACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTGgtagatttct ... tctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAA
EST: gi|207839184|gb|GD811169.1|GD811169
EST:     CAAGGACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTG                         ATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAA
genomic: CAAGGACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTGgtagatttct ... tctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAA
EST: gi|208115292|gb|GD913953.1|GD913953
EST:     AAGGAACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTG                         ATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTAGAAGGTTCAA
genomic: AAGG-ACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTGgtagatttct ... tctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAA
EST: gi|207769928|gb|GD742242.1|GD742242
EST:     CAAGGACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTG                         ATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAA
genomic: CAAGGACTTGCTTACCCAATTTAGGGGTGCTGCTGTGGCCATTGCTTCTGgtagatttct ... tctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgttcatattgtacttcccaagttcattttttactgcattctttctgcctcagATGAAAAGATAGCCTTGCTGGGTGCCATACAGTCTCTCTTTGAAGGTTCAATGTACACCTTTGTGTTTCTATGGACTCCTGCATTGAGCCCAAATGATGA
                                      cattctttctgcctc  CT-rich tract
                     aagttcatttttta  TA-rich tract