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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagacatcaatatttcaattatttctcataccatagttctcttgtgtagtagctgttgaattgcttttaagatgcaattcctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCAACT

Basic information

species Zea mays
transcript GRMZM2G129208_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g52170.1 (Oryza sativa), 3'ss of exon 10
gcaagacatcaatatttcaattatttctcataccatagttctcttgtgtagtagctgttgaattgcttttaagatgcaattcctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCAACT
||||||    ||  |||  ||      |  || || | ||||||||   | ||  | ||||||||| |      |||||||    |||||||||||||||||||||||||||||||||||||| |||||||| ||||||||||||
gcaaga----aaagttttgatgcacatt--tagcaca-ttctcttg---aatattttttgaattgcgtcagcattgcaatt---atttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTCGATTTGCCGATACGGCCAACT

upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA09G31980.1 (Glycine max), 3'ss of exon 10
----------------------------------------------------gcaagacatcaatatttcaattatttctcataccatagttctcttgtgtagtagctgttgaattgcttttaagatgcaat--tcctgttt-cagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCAACT
                                                    |  | | || |         | ||    | ||  |||   |  || |||  |  |||| | ||   ||| |   |   ||  |  ||||| |||||||| |||||||||||||||||||| || |||||| | || ||  | ||||||
gcatgaataatgtcttcgattgttaactttttatttgcttcatcatactcaagggaaaaattatagacaagttcatgatacttaatataaaacaattatgttctgtctgtggcatgtgtttgatagtttgatgattatgtttgcagGTTGTTCAGCAGTTTGGAATACCTCATCTATTTGATCTCCCTATTAGACCAACT

upper sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------gcaagacatcaatattt-caa--ttatttctcataccatagttctcttgtgtagtagctgttgaattgcttttaagatgcaattcctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCAACT
                                                   |||| |  ||||||  |||  | ||    | ||  |||   |   | |||  |  |||| | ||   ||| |   |   |||    || |||||||| |||||||||||||||||||| || |||||| | || ||  | ||||||
gcacgaataatgtctttgattgttaactttttatttgcttcatcatattcaaagaaaaaaatattgacaagttcatgatacttaatataaaacaactatgttctgtctgtggcatgtgtttgatagtttgattatgtttgcagGTTGTTCAGCAGTTTGGAATACCTCATCTATTTGATCTCCCTATTAGACCAACT

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|32921765|gb|CF026577.1|CF026577
EST:     ATGCTGATGGAAAACGTTATTACCCATTTGGACAAGGTTCTGGAACTCAG                         GTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
genomic: ATGCTGATGGAAAACGTTATTACCCATTTGGACAAGGTTCTGGAACTCAGgcaagacatc ... cctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
EST: gi|60400398|gb|DN233205.1|DN233205
EST:     CCCATTTGGACAAGGTTCTGGAACTCAG                         GTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
genomic: CCCATTTGGACAAGGTTCTGGAACTCAGgcaagacatc ... cctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
EST: gi|32920197|gb|CF025009.1|CF025009
EST:     ATGCTGATGGAAAACGTTATTACCCATTTGGACAAGGTTCTGGAACTCAG                         GTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
genomic: ATGCTGATGGAAAACGTTATTACCCATTTGGACAAGGTTCTGGAACTCAGgcaagacatc ... cctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
EST: gi|32921998|gb|CF026810.1|CF026810
EST:     ATGCTGATGGAAAACGTTATTACCCATTTGGACAAGGTTCTGGAACTCAG                         GTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA
genomic: ATGCTGATGGAAAACGTTATTACCCATTTGGACAAGGTTCTGGAACTCAGgcaagacatc ... cctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttctcttgtgtagtagctgttgaattgcttttaagatgcaattcctgtttcagGTTGTGCAGCAGTTTGGAATACCTCACCTCTTTGATTTGCCAATACGGCCAACT
                                           ttcctgtttc  CT-rich tract
                              ttttaagat  TA-rich tract