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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattttcttttaccattgctcatttgttgttaacaaccccttgcacctattgtacgcaatgattatgcccatggtgttcccagttccttacagttttggtatctcactgaactttgagtaaacacaattttgaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG

Basic information

species Zea mays
transcript GRMZM2G381933_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g15490.3 (Oryza sativa), 3'ss of exon 4
gtgattttcttttaccattgctcatttgttgttaacaaccccttgcacctattgtacgcaatgattatgcccatggtgttcccagttccttacagttttggtatctcactgaactt-tgagtaaacacaattttgaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG
|| |||||||| | || ||| | | ||| | || | | | |  |  || | || |   ||||  | |||||||| |   |  || ||  | |      | |  || |  | ||| | | | | |  ||| ||| |  || ||||||||||||||| |||||||| |||||||||||||||||||||||||| |||||||| ||||| || ||||| |||||||||||
gtaattttcttgttcccttgtttagttgctcttcaaatctcgatagacttgttatgtccaatcctcatgcccatagacctttcacttattgatgtccctagactcccgataaacctattacttactacagttt-gggattatagGTTGGTCAAGAGCAGTTCTCGCCTAGTTCACCTGGCTGGCCTCCTTTCATGAGGGTCAATCCTATATTGGACTGGTCATACAG

upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA03G34140.1 (Glycine max), 3'ss of exon 4
gtgattttcttttaccattgctcatttgttgttaacaaccccttgcacctattgtacgcaatgatta-tgcccatggtgttcccagttccttacagttttggtatctcactgaactttgagtaaacacaattttgaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG
                                    |     |||| | |  |  || ||||  ||| |  ||||||| |    |   |   ||  ||    |||   | | |    || ||   |  |  ||       | |||||||||||||||| ||||| |||||||||||||| ||||| ||||| |||||| ||||||| || || ||||||||||||||
----------------------------------gtatgtgtttgctctt--taaac-caatatttaattaccatggtttaatgaaaactggactattggcatattatattcatacatgtgtgctcctacctt-------acagGTTGGTCAAGAACAATTCTCCCCTAGTTCACCTGGGTGGCCACCTTTCATGAGGCTGAATCCCATTTTAGATTGGTCATACAG

upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 5
gtgattttcttttaccattgctcatttgttgttaacaaccccttgcacctattgtacgcaatgatt-atgcccatggtgttcccagttccttacagttttggtatctcactgaactttgagtaaacacaattttgaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG
                                    |  |  |||  | |  |  || ||||  || ||  ||||||| |    |   |  |  | | |||  || | |   |    |  ||     |   |   |  | | |||||||||||||||| ||||| |||||||| ||||| ||||| ||||| |||||||||||||| || || ||||||||||||||
----------------------------------gtatgcttttgttctt--taaac-caatatttgattaccatggtttaataaaagc--tggaatattgacatattat--attcatacgtgtgtgc---tcctaccttacagGTTGGTCAAGAACAATTCTCCCCTAGTTCGCCTGGGTGGCCACCTTTCATGAGGGTGAATCCCATTTTAGATTGGTCATACAG

upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgattttcttttaccattgctcatttgttgttaacaaccccttgcacctattgtacgcaatgattatgcccatggtgttcccagttccttacagttt-tggtatctcactgaactttgagtaaacacaattttgaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG
                                          ||      | |  |   |||  |||  | || | |    |||| | |  | | ||| || ||    | |||   |||| ||      | |      |   ||||||||||||| || |||||||||||||||||||| |||||||| ||||||||||||||||| || ||||||||||| |||||
-----------------------------------------gttagcttcacttca---aatctttaatctcaagat----ccagatgcaaatattttgtgatagtaaaatga---ttgattacttcttaatgcattttttcagGTTGGTCAAGAGCAATTCTCTCCTAGTTCACCTGGATGGCCTCCCTTTATGAGGGTGAATCCTATATTGGATTGGTCCTACAG

upper sequence: GRMZM2G381933_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 5
gtg-attt--tcttttaccattgctcatttgttgttaacaaccccttgcacctattgtacgcaatgattatgcccatggtgttcccagttccttacagttttggtatctcactgaactttgagtaaacacaattttgaaatgat-----agGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG
||  ||||  |  | ||||         |   |||   | ||   ||   |||    |||   || ||  | |  ||     |   | | | ||| |   ||   |  | |      || |  ||   | | |||| | || ||     |||| ||||||||||| |||||||||||||||||||| ||||| ||||||||||| ||||| ||||||||||||||||| |||||
gtatatttgatgctctacctcaaaaagctatatgtctgctacatattttgcct--catactagattatcttccagatttctgtaagattgcattagaagattcaaag-tgataagtgttagtatatttatatttttaacattatcttgcagGTAGGTCAAGAACAATTCTCTCCTAGTTCACCTGGATGGCCACCTTTTATGAGAGTGAACCCAATCTTGGATTGGTCTTACAG

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|211136285|gb|FL006477.1|FL006477
EST:     AGCCCACGAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCG                         GTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
genomic: AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCGgtgattttct ... gaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
EST: gi|211136284|gb|FL006476.1|FL006476
EST:     GCCCACGAAAGCA-TTTTCATTGGCACAAGAATTGTTGATCCAAATGCCG                         GTGGGTCA-GAACAGTTCTCTCCTA
genomic: GCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGC-Ggtgattttct ... gaaatgatagGTTGGTCAAGAACAGTTCTCTCCTA
EST: gi|33770862|gb|CF273156.1|CF273156
EST:     AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCG                         GTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
genomic: AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCGgtgattttct ... gaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
EST: gi|74242522|gb|DT650436.1|DT650436
EST:     AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCG                         GTTGGTCAGGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
genomic: AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCGgtgattttct ... gaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
EST: gi|31353159|gb|CD437516.1|CD437516
EST:     AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCG                         GTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
genomic: AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCGgtgattttct ... gaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
EST: gi|32932020|gb|CF036832.1|CF036832
EST:     AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCG                         GTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG
genomic: AGCCCACCAAAGCAATTTTCATTGGCACAAGAATTGGTGATCCAAATGCGgtgattttct ... gaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacagttttggtatctcactgaactttgagtaaacacaattttgaaatgatagGTTGGTCAAGAACAGTTCTCTCCTAGTTCACCTGGCTGGCCTCCTTTTATGAGGGTGAATCCAATCTTGGATTGGTCATACAG
                                       aattttgaaatgata  TA-rich tract