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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctgacattctaaacatgttatttgtcaattgacagttttaatttatgttgaacttaaaaaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA

Basic information

species Zea mays
transcript GRMZM2G447433_T08
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 3'ss of exon 4
gtacctgacattctaaacat--gttatttgtc-aattgacagttttaatttatgttgaact--------------taaaaaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
|||   ||   ||| |      | ||| | |  || | |||  |||  || ||| |||||               || |   | || ||| ||  | ||||| || ||||||||||||||||| ||||||||||||||||||||||||||||| ||||| ||||||||||||||||||||||| |||||
gtatacgatgctctcatttgtagatatctattgaagttacatctttggttcatgctgaaccatataatttaaccatagagtttgtgcagGGATTCTATATTCGGTACTTATAACTGCTGTGATTACTGATGCAATTAAGGATGGTGTTGGTCGTCCTCGCCCAGATTTCTTTTGGCGTTGTTTCCCTGA

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g27030.2 (Oryza sativa), 3'ss of exon 3
gtacctgacattctaa-acat-gttatttgtcaa--------ttgacagttttaatttatgttgaacttaaaaaat-atgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
|||  ||  | ||| | |  | | ||| | ||||        || ||  ||||| || ||| ||||||  | |  |  |  ||| ||  | ||||| |||||||||||||||||||| ||||||||||||||| |||||||||||||||| || ||||||||||||||||||||||| |||||
gtatatggtactctcatatgtagatatctatcaaattacactttcacttttttagttcatgctgaactggacactttgtacagGGATTCTATATTCGGTGCTTATAACTGCTGTGATTACTGATGCAATTAAGAATGGTGTTGGTCGCCCACGCCCAGATTTCTTTTGGCGTTGTTTCCCTGA

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G18450.2 (Glycine max), 3'ss of exon 3
---------------gtacctgacattctaaac---atgttatttgtcaattgacagt--tttaatttatgttgaacttaaaaaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
                ||       |||  |||   || ||   | ||| ||  |  |    |||  |||||    |  ||   ||||  |||  | || | ||| || || || ||||| ||||| || ||||| || || ||||||||||| || || || ||||||||||| ||||||||||| |||||
gtacttttctgtcttttagaaacttttcctaaccttattttgcatatcactttgctatagcctaacctatgtattgccaaatgcatattcagGCCTTTTATTTTCTGTACTCATTACTGCGGTGATAACGGATGCTATCAAAGATGGTGTTGGACGGCCACGCCCAGATTTCTTCTGGCGTTGTTTCCCTGA

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA20G25650.1 (Glycine max), 3'ss of exon 3
----gtacctgacattctaaacatgttatttgtcaat-tgacagttttaatttatgttgaact--taaaaaatatgt-agGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
     |  ||||   |   ||  | || | ||||  | | |     ||    ||     | ||  |   ||||     |||  |  | | ||| || || || ||||| ||||| |||||||| || ||||||| |||||| || ||  ||||||| ||||| ||||||||||| |||||
gtacatttctgaaccttggaatgttttctctgtccttcttatcacattggaatactgaaacctattgctaaatgcaccagGCCTTCTATTTTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGA

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G41580.1 (Glycine max), 3'ss of exon 3
----gtacctgacattctaaacatgttatttgtca--attgacagttttaattt--atgttgaac----ttaaaaaatatgt-agGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
     |  ||||   |   ||  | || | ||||   |||  ||  |   ||    ||  ||||     ||   |||| | | |||  |  | | ||| || || || ||||| ||||| |||||||| || ||||||| |||||| || ||  ||||||| ||||| ||||||||||| |||||
gtacatttctgaaccttagaaggttttctctgtccttatttgcacatcacatcggaatactgaaacctattgctaaatgtatcagGCCTTCTATTTTCCGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGA

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: AT1G15080.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------gtacctgacattctaaacatgttatttgtcaattgacagttttaatttatgttgaacttaaaaaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
                      ||   | |  ||   ||    || | ||| |  |     |||| |  | ||||   |||      | |  |||  | ||||  || || |||||||| | ||| || || ||||| || ||||| | ||||||||| ||||| || |||||||||||||||||||| |||||
gtacctctttcttcttccaattgtgtttcatgtttcgaa----ttctctgt-agctcttgattttgaggtgtgttct-cttgggtcttcttcagGGCTTTTGTTCTCTGTACTTATAACCGGTGTCATAACCGATGCTATAAAGGACGCTGTTGGTCGACCTCGTCCTGATTTCTTTTGGCGTTGTTTCCCTGA

upper sequence: GRMZM2G447433_T08 (Zea mays), 3'ss of exon 5
lower sequence: Vv01s0011g04180.t01 (Vitis vinifera), 3'ss of exon 2
------gtacctgacattctaaacatgttatttgtcaattgacagttttaatttatgttgaa---cttaaaaaat-----------atgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
       |   |  | | ||| |  | || |  ||||  |     | ||   || || || |   |||||   ||            | ||||  |  | |  || || || || || || || || |||||||||||||| |||| |||||| || ||||| ||||| ||||||||||||||||| ||| |
gtatcactttttcccttcctagatttctt-tgagtcaggtactgttgtttccttgtggtgcattgcttaatggattatgtgtgcatgtttagGCCTTCTATTCTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAA

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|211211372|gb|FL470796.1|FL470796
EST:     CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|211272973|gb|FL366561.1|FL366561
EST:     CTATGATTTACACCACGGCATACTAG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|10697618|gb|BE997342.1|BE997342
EST:     CAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|32932160|gb|CF036972.1|CF036972
EST:     CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTGG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|71439499|gb|DR820549.1|DR820549
EST:     CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|32932582|gb|CF037394.1|CF037394
EST:     CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAG                         GTATCTTATATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|78114830|gb|DV533218.1|DV533218
EST:     CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
EST: gi|101397320|gb|EB820583.1|EB820583
EST:     CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAG                         GTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG
genomic: CATTTACTTCAAAAAGAAAAATGTCTATGATTTACACCACGGCATACTAGgtacctgaca ... aaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgttatttgtcaattgacagttttaatttatgttgaacttaaaaaatatgtagGTATCTTGTATTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGA
                      ttttaat  putative branch site (score: 3)
                    agttttaatttatgtt  TA-rich tract