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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgattatggcttactgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG

Basic information

species Zea mays
transcript GRMZM2G032367_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 5
gtaattgcagttaatggtgttg-cattgctttgatgtggcctttcact----gattatggcttactgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
|||||   | || |||   ||| | |||| ||| | |   ||| |||       || |   |||||||||| | | | |   | ||||||||||||||||| ||||||||||| || |||||||||||||| ||||||||||||||||| |||||||||
gtaatgatattttatgccattggcgttgcattgtt-taatcttccaccttcaagttgtaatttactgtttg-actccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAG

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g23620.4 (Oryza sativa), 3'ss of exon 4
gtaattgcagttaatggtgttg-cattgctttgatgtggcctttcact----gattatggcttactgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG----------------------------
|||||   | || |||   ||| | |||| ||| | |   ||| |||       || |   |||||||||| | | | |   | ||||||||||||||||| ||||||||||| || |||||||||||||| ||||||||||||||||| |||||||||                            
gtaatgatattttatgccattggcgttgcattgtt-taatcttccaccttcaagttgtaatttactgtttg-actccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAGGTAAATCTCATTCTCTGTCAGTTATACC

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 5
gtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgattatg-gcttactgtttgcat---tgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
|||||   | ||| | |  | | | ||  ||  ||     ||  | ||  | |   | |    | |  ||   ||   |  | |||||  | ||||||||||||||||||||||| || ||||| ||||| || ||||| |||||||||||||||  |
gtaatgctaattatttg-atagtaatgtctt--tggaattttctaatgtatgtctacctgaaatatatatccttgtgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGTGACCCACCTGCTGGTGTTTCG

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G07020.1 (Glycine max), 3'ss of exon 4
gtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgat-tatggcttactgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
||||| |    || |    | | |  |  || |  |   ||||  ||  | |||     |   |||       | |  | |||||  | |||||||||||||||||||| || || ||||| ||||| || ||||| || ||||||||||||  |
gtaat-gagtgtagtctgctagtaacgtctttagattttcttttgcttttatatcataaataattttacccttaatgtttcagGCTCGTCACAATGGTCAGAACTATGTGTTTGCACTTCTAACTGGTTATCGTGACCCTCCTGCTGGTGTTTCG

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
gtaattgcagttaatggtgttgcattgctttgatgtggcctttcac-tgattatggcttactgtttg-cattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
|||||   | ||| | |      ||  ||||||  |   ||      ||  ||      | | | |  | ||    |  | |||||  | ||||||||||||||||||||||| || ||||| ||||| || ||||| |||||||||||||||   
gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 3'ss of exon 4
-gtaattgcagttaatggtgttgcattgctttgatgtggcctttcactgattatggctt--actgtttgcattgcatt--catccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
      ||| | || |    ||  | ||      ||| ||       || ||   | ||  | |  ||  | ||   |  | |||||||| | ||||||||||  |||||||| || || ||||| ||||| ||||||||||| ||||||||  |   |
gtctgctgctgctactttactttaactgaacatctgtagcaaacttgtgttttgtgttttaaatagttttaatgttctgccttccagGCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCG

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 4
gtaattgcagt-taatggtgttgcattgctttgatgtggcctttcactgattatggcttactgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
|||||| |  | |  |||| | || |    | ||  |    | |   | ||      | |    |||| ||   |   | |||||  | ||||||||||| |||||||| || || || || ||||| ||||||||||||||||||||  ||  |
gtaatttctatgttctggtttggcttcttatggagattatgtctatgttatc-caagtgatatcttgcttttgttcttttcagGCTCGCCACAATGGTCAAAACTATGTATTTGCACTGCTAACTGGTTACCGTGATCCACCTGCTGGCATTTCG

upper sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 3'ss of exon 3
gtaattgcagttaatggtgttgcat-tgctttgat-gtggcctttcactgattatggctt--actgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
      | | |||||  ||||  |  | | ||||| |  |    |  |||   |   ||   |    |  |  |   | |   |||||  | |||||||||||||| ||||| || |||||| | ||||| ||||||||||| || |||||||||   
------gta-ttaattttgttatagatcccttgatagaagtgaatggctgtccacccctacaataactgactctttgtcctctcagGCCCGCCACAATGGTCAGAATTATGTATTTGCTCTTTTAACTGGTTACCGTGATCCTCCAGCTGGTGTTTCA

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|71331562|gb|DR802627.1|DR802627
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|91878167|gb|EB408124.1|EB408124
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGACCTATGTTTTCGCTCTTCTTACTGGATA
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATA
EST: gi|60347964|gb|DN214937.1|DN214937
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|30705061|gb|CD058656.1|CD058656
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|50338206|gb|CO533332.1|CO533332
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|149089338|gb|EE178570.2|EE178570
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|76016444|gb|DT943614.1|DT943614
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|60359707|gb|DN226680.1|DN226680
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCCG
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACC-G
EST: gi|78108501|gb|DV526919.1|DV526919
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|74239656|gb|DT647570.1|DT647570
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|37386374|gb|CF630373.1|CF630373
EST:     CGCCTACCCGCCGGACNTTA-TCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: CGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|101393980|gb|EB818923.1|EB818923
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|91878166|gb|EB408123.1|EB408123
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|211323657|gb|FL286663.1|FL286663
EST:     TTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: TTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
EST: gi|14206642|gb|BG840320.1|BG840320
EST:     GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAG                         GCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT
genomic: GATTTGCTAATGGTGGCGCCTACCCGCCGGACCTTAGTCTTATCACAAAGgtaattgcag ... attcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgatgtggcctttcactgattatggcttactgtttgcattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG
                          ggcttac  putative branch site (score: 3)
                                              ttcatcc  putative PPT
                   tgattat  TA-rich tract