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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgacaactagagcacatattcgcatctttgtttgtctttagataatggtacttggatggttgctaaatgcttcagttactttgtttttttacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCTGGTGTATTTATTGGCAACATGAAGGTCCTAGTTAGGTTGTCATTTGGAC

Basic information

species Zea mays
transcript GRMZM2G012501_T01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G012501_T02 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 17
----------------gtgacaact-agagcacatattcgcatctttgtttgtcttt-agataatggtacttggatggttgctaaatgcttca---gttactttgtttttttac----ttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCTGGTGTATTTATTGGCAACATGAAGGTCCTAGTTAGGTTGTCATTTGGAC
                ||  | | | |  | |  |   |  |  |   || || ||| ||| | |   | |    |||||  | |    || |   ||  ||   |  ||   |    ||  |||||||||||||||||||| || ||||||||||||||||| ||||| || |||||||| || || ||| ||   ||||| || || ||| | || |||||||
gtcagtttccacttctgttcctattcatcgtaattggccctacatcatttggtttttgagaaatttaaattcatttggtttttgagaaatttaaatgtcgctaaatccttgcgcatgtttggcagGGCACTGAGGTTGTACCAAAGAATGCAAGATCGCACACTTGCCTGCTGTCTGGTGTGTTCATCGGCGACGCCAAGGTTCTTGTCAGGCTATCGTTTGGAC
















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|211362769|gb|FL362321.1|FL362321
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|31350725|gb|CD435082.1|CD435082
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAAATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|33093956|gb|CF053950.1|CF053950
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACC
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACC
EST: gi|211483291|gb|FL326634.1|FL326634
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|32910290|gb|CF015102.1|CF015102
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|5343172|gb|AI795357.1|AI795357
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|91049226|gb|EB159644.1|EB159644
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|148946069|gb|EC891365.2|EC891365
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATTT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|211394483|gb|FL357133.1|FL357133
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACC
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACC
EST: gi|32910289|gb|CF015101.1|CF015101
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
EST: gi|6194545|gb|AW146649.1|AW146649
EST:     CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAG                         GGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT
genomic: CTGAGGCTGTCAATGCTGTCATTAATATCCTTGGAATGCAGCCGTGTGAGgtcagtttcc ... tacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtacttggatggttgctaaatgcttcagttactttgtttttttacttttcagGGCACTGAGGTTGTACCGAAAAATGCAAGATCGCACACCTGCCTTCTATCTGGTGTATTTATTGGCAACATGAAGGTCCTAGTTAGGTTGTCATTTGGAC
                tgctaaa  putative branch site (score: 2)
                               ttactttgttttttta  putative PPT
                               ttactttgttttttta  TA-rich tract