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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgggcctttcctttgagcattgttataccgtagtgcattttgtgtttacttttttcttgtcctgttcttttatgctgttactgttagctaacctgttgctaacactgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGATGAGCTATCAGTACAAACAAACTAAAGTGGGCTGTAGGTCTAATCAAAC

Basic information

species Zea mays
transcript GRMZM2G340749_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G340749_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os03g44900.2 (Oryza sativa), 3'ss of exon 14
--------------------------gtatgtgggcctttcctttg----agcattgttataccgtagtgcattttgtgtttacttttttc----------ttgtcctgtt--cttttatgctgttactgtt----------agctaacctgttgctaacactgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGATGAGCTATCAGTACAAACAAACTAAAGT----GGGCTGTAGGTCTAATCAAAC
                           |||  |   || |  | ||     | |||| | |  |  |  |  || | | ||  ||    ||          | ||  |  |   || || | || |||  ||             |||| || |  || |  |||||||||||| || ||||||||||| ||||||||||| |||||||||||| | ||||||||||| |||||||| ||||| || ||     ||    |||| ||||||    
gtatgtttaataacatcattgcatgcatattagaatctattttctggcatggtattgctgtttccaatcgagttctctattagctgggctcagtatggcagtagtaatactaatttctaagatggtacccttcttcgactgtgtttaacttgcttataccgttgcttgcagGTGTCAGAGAATCAAGAACGACTTCACATTTGAGTACAACTTCCTTGAGGATGAGCTGTCAGTACAGACAAATTAGAGAGCCAGGATATTAGGGCTAATC----
















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|211026661|gb|FL472268.1|FL472268
EST:     GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATG                         GTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
genomic: GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATGgtatgtgggc ... ctgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
EST: gi|50331351|gb|CO526477.1|CO526477
EST:     GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATG                         GTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
genomic: GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATGgtatgtgggc ... ctgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
EST: gi|67024274|gb|CO453023.1|CO453023
EST:     GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATG                         GTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
genomic: GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATGgtatgtgggc ... ctgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
EST: gi|31359147|gb|CD443504.1|CD443504
EST:     GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATG                         GTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA
genomic: GGATCATATGTATACTTTGATTTCCATGTCACCGAGGATGGCTCAGGATGgtatgtgggc ... ctgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctgttcttttatgctgttactgttagctaacctgttgctaacactgcttgcagGTGCCAAAGAATCAAGAATGACTTCACATTCGAGTACAACTTCTTGGAGGATGAGCTATCAGTACAAACAAACTAAAGTGGGCTGTAGGTCTAATCAAAC
                                     tgctaac  putative branch site (score: 1)
     ttcttttat  TA-rich tract