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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaccacaatgttttttttaagaaatccggagtcaaacatcaaaatgtttcttttttccaatccgatgtcaccaaaacgtttcattatttgcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG

Basic information

species Zea mays
transcript GRMZM2G065012_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 2
agaccacaatgttttttttaagaaatccggagtcaaacatcaaaatgtttcttttttccaatc-cgatgtca--cca-aaacgtttcattattt----gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
   ||| || ||||  ||    || |  || |    ||||     |  |||| || |  |||   |||  ||  ||| || | || |||| ||     |    || |||| ||||| |||||||||||||| || || || |||||||||||||  ||||| ||||| || ||||||
---cca-aacgtttggttatgaaattatggtgatgcacatt----ttcttctgttatgaaattatgatcacaatccacaagcattacatttttccttggggcatttagGTCTGGGCAATCGCTGATTCCAAGCGTCAGGGTTATCTTGGATTCTCGGAGTTTATGACCGCAATGCAG

upper sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 2
agaccacaatgttttttttaagaaatccggagtcaaac-atcaaaatgtttcttttttccaatccgatgtcaccaaaacgtttcattatttgcatcttc---agGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
   |  |    ||||  | | |  |||      |   | | |    ||  |   | |     | | | ||      ||  ||  ||| ||||  | |     |||||||||| || || ||||||||||| ||||||| |||||| |||   |||||||| ||||| ||||||
---ctgctgaattttaatgatgggatctatttccttgccacccctttgccttactatcagggttcta-gttgttttaaacttatattctttgtgtttgttgaagGTTTGGGCTATTGCAGATTCCAAACGACAAGGATTTCTTGGTTTCAGGGAGTTCATCACTGCAATGCAG
















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|76283614|gb|DV023182.1|DV023182
EST:     CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAG                         GTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
genomic: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
EST: gi|71333237|gb|DR803673.1|DR803673
EST:     CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAG                         GTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
genomic: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
EST: gi|71769027|gb|DR966964.1|DR966964
EST:     CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAG                         GTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG
genomic: CGCTCAGGTTCTTCGCCATGTCCAACCTCTCCAAGCCCGAGCTGAAGCAGgtgaattgac ... gcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttcttttttccaatccgatgtcaccaaaacgtttcattatttgcatcttcagGTTTGGGCGATCGCTGATTCCAAACGCCAAGGATATCTTGGATTCTACGAGTTCATGACTGCCATGCAG
                                              catcttc  CT-rich tract
                                  tttcattattt  TA-rich tract