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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtttgcctcatcctcttgtagaaatatttctgctctgcatggttggttttgttgtgtgctaaggttgagtttatgttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACA

Basic information

species Zea mays
transcript GRMZM2G125300_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G125300_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g46490.1 (Oryza sativa), 3'ss of exon 2
gtacgtttgcctcatcctct-tgtagaaatatttc-tgctctgcatggttggttttg-ttgtgtgctaaggttgagtttatgttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACA
||| ||||   |||| ||   |||     | | |  | |      || || | | |  || |        |||| |||  | ||| | ||||||| |||| |||||||||||||| ||||||||||||||||| ||||||||||||||||| ||  |||||| |||||| ||||| ||||| | |||||| 
gtatgtttctgtcattcttgatgttttggtgtctaattcaactggtgtttagatgtacttttacatgcgtgttgtgttggt-ttcctgcagCTCGACCACCAACAGGATCATCACCGCCAAGGACCATGCCTCGGTCCAGATCAACATTGGGCATGTGGATGAGAATGGGCTGTACGATGGCCGCTTCACC

upper sequence: GRMZM2G125300_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G37700.1 (Glycine max), 3'ss of exon 1
gtacgtttgcctcatcctcttgtagaaatatttctgctctgcatggttggttttgttgtgtgctaaggttgagtttatgttcttt-cagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACA
      ||| | | |  | | |   || | |   |  | ||     || |   || |||    ||  ||| |    | || | || || ||| ||||| |||||  |||| ||||| |||||||||||||| || ||||| ||||||||||| ||||||| ||||||  | |||               
-----gttgtcacgttttttcg---aattgtggttcttttgtggaatttgaactgatgt----tattgttaaagC-ACGTACGTTGCAACTCTGCCACTAACAGACTCATAACTGCAAAGGACCATGCCTCGGTTCAGATAAACATTGGCCATTTGGATGAGAATGGTATCTATA--------------

upper sequence: GRMZM2G125300_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G15800.1 (Glycine max), 3'ss of exon 2
-------------------------------------gtacgtttgcctcatcctcttgtagaaatatttctgctctgcatggtt------ggttttgttgtgtgctaaggttgagtttatg---ttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACA
                                      |   ||||        | || ||   ||  || |    |   | |||      | |||| || ||   |  |  ||  ||| ||   ||  | |||||| |||||||||||  | || || || ||||||||||| || || |||||||||||||| ||  |||||| ||||||| | ||  |||| || ||| | 
gtatgcgctttaatcctgcaatcactgttcgttaatttttaatttgtggggattttttttaatgatggttgtttatttatttgttctttgagtttttattttggaatttgaatggatttgtgaatttggtgcagCTCCGCCACAAACAGATTGATTACCGCTAAGGACCATGCTTCGGTTCAGATCAACATTGGGCATGTGGATGAGAATGGCGTCTACAATGGCCATTTCTCC

upper sequence: GRMZM2G125300_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G27700.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------------gtacgtttgcctcatcctcttgtagaaatatttctgctctgcatggttggttttgtt---gtgtgctaaggttgagtttatgttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACA
                    | | ||||  |    ||||  |     |  |     |    | |    | || |||   || || |    |||| |  || ||    ||| || || || ||| || | |||||  ||||||| ||||||||||| ||| |||||||||| || || ||||| |||||| ||||    || || ||||||
gtaatgagaatcatttcttcttcttttgttttggtctctgttttgtgttctctcattaactaagagaagattggttcttgtttgtttgttttgactgaatattgg--cagTTCTGCTACTAACCGGTTGATCACATCCAAGGATCATGCCTCTGTTCAGCTCAACATTGGTCATTTAGATGCTAATGGCTTGTACACCGGACAGTTCACA

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|32836843|gb|CD976521.1|CD976521
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|9730947|gb|BE509699.1|BE509699
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTTCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|32932877|gb|CF037689.1|CF037689
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTTCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|91869600|gb|EB400457.1|EB400457
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG                         TTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|32793079|gb|CD945315.1|CD945315
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|71431500|gb|DR812550.1|DR812550
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|33094595|gb|CF054589.1|CF054589
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTTCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|33091065|gb|CF051059.1|CF051059
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTTCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|211133498|gb|FL122205.1|FL122205
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
EST: gi|9952632|gb|BE639320.1|BE639320
EST:     TGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTTCCCAGAGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGA
genomic: TGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAG-GAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGA
EST: gi|211181607|gb|FL122698.1|FL122698
EST:     ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTG                         CTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT
genomic: ATGCAGAACGAGGAGGGTAAGACTGTGGACCTCTATGTCCCCAGGAAGTGgtacgtttgc ... gttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctctgcatggttggttttgttgtgtgctaaggttgagtttatgttctttcagCTCGGCCACAAACAGGATCATCACTGCCAAGGACCATGCCTCTGTCCAGATCAACATTGGCCACTTGGATGCGAATGGCCTGTATGATGGTCACTTCACA
                                            tgttctttc  CT-rich tract
                                        tttatgtt  TA-rich tract