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 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttccacgacgagttctccacttgaactggcgttgtttcttatcatcgcaaagataactccggagtgatgatgcgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACTGTCTCGAGGACAGTTGATGCGAATGTGTCCGAGGCGGAAGGTGTATACA

Basic information

species Zea mays
transcript GRMZM5G828312_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G828312_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g70170.1 (Oryza sativa), 3'ss of exon 5
------------------------gtatgcttccacgacgagttct---ccacttgaactg-gcgttgtttcttatcat---cgcaaagataactccggag----tgatga-tgcgc-ttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACTGTCTCGAGGACAGTTGATGCGAATGTGTCCGAGGCGGAAGGTGTATACA
                          ||  |  ||    || |  |     |  ||||  | ||      |   |||||   |      |||| | || ||    || | | || ||  ||||||||    || ||||||||||||||| |||  |||||||| ||||||||||| || ||||||||| | || || || || || || || |||||||||||||
gtgagtttccacagcaaatttacttcatcttatcatctagattgttggaatagctgaatagagctcgacattccatcatacacatgggcataatttcgaagcaaatgctaactgtgcgctttcagGTTTCTACCATGCCCGACCAAGCTCTGCTGGCATTCATCGACCACGGCACAGTTTCGAGGACAATCGACGCAAACGTTTCGGATGCTGAAGGTGTATACA
















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|93014947|gb|EB640467.1|EB640467
EST:     GGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
genomic: GGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|84977486|gb|DW475908.1|DW475908
EST:     ATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAGGCATTCATAGACCACGGCACT
genomic: ATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|7118955|gb|AW497535.1|AW497535
EST:     CAGCTTATACCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGGCCGACCAAGCTTTGCACGCATTCATAGNCCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|30032095|gb|CB833946.1|CB833946
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|45847366|gb|CN071309.1|CN071309
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGATCAAGCTTTGCAGGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|22489199|gb|BU049135.1|BU049135
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAGGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|24767258|gb|CA402402.1|CA402402
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCCCT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|16927472|gb|BM080541.1|BM080541
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|61118892|gb|DN559853.1|DN559853
EST:     AGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAGGCATTCATAGACCACGGCACT
genomic: AGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|7145485|gb|AW506966.1|AW506966
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|17970104|gb|BM276885.1|BM276885
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAGGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|161407702|gb|DW042447.1|DW042447
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCAGGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
EST: gi|16925436|gb|BM078504.1|BM078504
EST:     CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACG                         GTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT
genomic: CAGCTTATCCCGACACTCTTTACATCGACAGTCTCATTGGACCTGACACGgtatgcttcc ... cgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcgttgtttcttatcatcgcaaagataactccggagtgatgatgcgcttttcagGTCAACACGATGCCCGACCAAGCTTTGCACGCATTCATAGACCACGGCACTGTCTCGAGGACAGTTGATGCGAATGTGTCCGAGGCGGAAGGTGTATACA
                       agataac  putative branch site (score: 3)
                                             cgcttttc  putative PPT
       tttcttat  TA-rich tract