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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacttaagatgttgcctcattgaagaactatatatatgcattgttgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA

Basic information

species Zea mays
transcript GRMZM2G059671_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g32610.3 (Oryza sativa), 3'ss of exon 9
---atacttaagatgttgcctcattgaagaactatatatatgcattgttgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
   |   ||||||||||||| |||| |||  | | || |||   ||| | ||    ||| |||| |||   ||| |||   | ||  | ||||| || |||||||||||||||||| |||| |||| ||||| |||||||| ||| ||||||||||||| ||||||||||| || ||||| |||||||| ||||| |||||||
gagaatgttaagatgttgccccattcaaggtc-acatgtataagttgatttaatcatgtaatgtccat--gtcacttaacatgttaggtattctcctctgtagGTTGCAATTATGAAAAGTCTGCGCCATCCAAACATTGTCCTTTTTATGGGTGCTGTTACTCAGCCACCAAAACTTTCGATTGTGACAGAATATCTATCAA

upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G21480.1 (Glycine max), 3'ss of exon 8
--atacttaagatgttgcctcattgaagaactatatatatgcattgttg-tagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
  || ||| | | ||||        ||      | ||| ||| || | | ||   |  || |||| ||||    | |  | |         |  |||| |||||||||||| |||| | |||| || ||||| ||||||||| |  ||||||| || ||||||||||| |||||| | |||||||| || |||||  |||| |
gtatgcttgaaa-gttgaaagtcctaaccctgctttatttgctttttagatattttcttgctgtttatttgatctgtgttttcc------cttctcttggtagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACGGAATATTTATCTA

upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G37570.1 (Glycine max), 3'ss of exon 9
----atacttaagatgttgcctcattgaa-gaactatatatatgcattgt-tgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
       || ||| | ||  ||  ||    | |  | | | |   ||||    |    || || |    ||| ||  |   |||||||      |||| ||  ||||||||||| |||| | | || || ||||| ||||||||| | ||||||||||| |||||| |||| |||||  | |||||||| || |||||  | ||||
gtatgctctgaagttcttatcttgttttgtgcagaaaaaacaccaattgcactttaagttttgcttgctattgatt-tgagctgtatttttacctctt-ttgctagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATTTATCAATTGTCACGGAATATTTGTCAA

upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA03G34890.1 (Glycine max), 3'ss of exon 9
----atacttaagatgttgcctcattgaa-gaactatatatatgcattgt-tgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
    |  || ||| | ||  ||  ||    | |  | | | |   ||||    |    || || |    ||| ||  |   |||||||      |||| |   ||||||||||| |||| | | || || ||||| ||||||||| | ||||||||||| |||||| |||| ||||| || |||||||| || |||||  | ||||
gtatactctgaagttcttatcttgttttgtgcagcaaaaacaccaattgcactttaagttttgcttgctattgatt-tgagctgtatttttacctctt-tcactagGTTGCAATAATGAAAGGCTTACGGCATCCAAACATTGTTTTACTTATGGGTGCAGTCACTAAGCCTCCTAATCTATCAATTGTCACAGAATATTTGTCAA

upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 10
atacttaagatgttgcctcattgaagaactatatatatgcattgttgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
              |  |  ||||| |    ||    ||| || || |    ||  ||| ||   |||   |||| |  ||       | |  ||  ||||||||||| |||| | |||| || ||||| ||||||||| |  ||||||| || ||||||||||| |||||| | |||||||| || |||||  ||||||
--------------gtatgcttgaa-agtcctaaccctgctttatt-tgctttttagatatttgcttactgtttatttgat------ctgtgtttattagGTTGCAATAATGAAACGTTTACGGCATCCAAACATTGTTTTGTTTATGGGGGCAGTCACTCAGCCTCCTAACTTATCAATTGTCACAGAATATTTATCAA

upper sequence: GRMZM2G059671_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv13s0074g00430.t01 (Vitis vinifera), 3'ss of exon 8
-------------------------------------------atacttaagatgttgcctcattgaagaactat----------atatatgcattgttgtagcattgtgatgttcatttatcatttactgtat---tgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
                                           || | | |     || ||  |||||    | |          | |||| |  |||   | | || | ||  ||||||    | | | ||     | | |  | || || | |||||||||| |||| | | ||| | ||||| |||||||||||  ||||||||||||| |||||||| ||  | || || || || || |||||| ||||||
gtacttagctacttcctgctatttccaaataaatcctcttttaatgcatgaataaatgtctagttgaactgtttttgggttgggaaaatattctgtgtctcatcttttttattatcattttaagtctgcagttcatctcatgtattttattggcagGTTGCAATCATGAAACGCTTGAGGCATCCAAACATTGTTCTCTTTATGGGTGCTGTTACTCAGCCTCCACATCTGTCCATAGTTACAGAATACTTATCAA

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|20802940|gb|BQ293990.1|BQ293990
EST:     TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCTATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|32836824|gb|CD976502.1|CD976502
EST:     TAATGGAGCGGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|26456437|gb|CA828020.1|CA828020
EST:     TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|32839244|gb|CD978925.1|CD978925
EST:     TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|32837172|gb|CD976850.1|CD976850
EST:     TAATGGAGCGGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|60337361|gb|DN204334.1|DN204334
EST:     GAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: GAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|32838830|gb|CD978511.1|CD978511
EST:     TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
EST: gi|32836743|gb|CD976421.1|CD976421
EST:     TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAG                         GTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT
genomic: TAATGGAGCAGGACTTCCATCCAGAGCGTCTCAAAGAATTTTTGAGAGAGgtataactgc ... ttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtagcattgtgatgttcatttatcatttactgtattgaggattcttctttgtagGTTGCAATTATGAGAAGTTTGCGACATCCGAACATTGTTCTTCTTATGGGTGCTGTCACTCAGCCACCTAACCTTTCAATTGTGACTGAATACCTATCAA
                                          ttcttctttgt  CT-rich tract
               ttcatttatcattta  TA-rich tract