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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatgaactgggactgctacattcggtcggtcaataatatcctttacggcaatttctatctcaccaaaagcgttaattaattccttccttgttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACGCCCTACAGGGTAGCCTGGGACTACTACATGAGGTCGAACGAGAACCACA

Basic information

species Zea mays
transcript GRMZM2G445478_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G445478_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g32910.1 (Oryza sativa), 3'ss of exon 1
---ggatgaactgggactgctacattcggtc--ggtca-ataatatcctttacggcaatttctatctcaccaaaagcgttaattaattccttccttgttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACGCCCTACAGGGTAGCCTGGGACTACTACATGAGGTCGAACGAGAACCACA
   | |     ||  | |||    || |  |    ||| |||   ||||| |     | || | ||||| ||  |   |       ||  ||    | |  |||||||||||||  |||||||||||||||||||||| ||||| ||||| |||||||| |||||| |||  ||||| |||||||| |   |  | ||| ||  | 
actgtactgtatgaaagtgcgttctttgtactgaatcatatatagtccttcatacttagttttgtctcagcagcaaaat------gtttgttgtggggttatgtagACTGCTTCAGCTCAGAGCTGGACATGCATGGATCTGTATGTGTTTGCAACGCCGTACAGGATAGGATGGGATTACTACATTACAGCACAGGAGCACACCT
















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|148929994|gb|EE285845.2|EE285845
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|148965941|gb|EE016855.2|EE016855
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|149090684|gb|EE180010.2|EE180010
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|91053068|gb|EB163486.1|EB163486
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|148972705|gb|EE023666.2|EE023666
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|93284639|gb|EB676903.1|EB676903
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|149079355|gb|EE168332.2|EE168332
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
EST: gi|148967220|gb|EE018415.2|EE018415
EST:     GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAG                         ACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG
genomic: GCCGCAACGGGACCGCCGGGGGCCTCGGTGGCGCCGTCCTCCGCCTCAAGgtgagggatc ... gttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acggcaatttctatctcaccaaaagcgttaattaattccttccttgttgctgtagACTGCTTCGCCTCAGAGCTGGACATGCATGGACCTGTACGTGTTCGCAACGCCCTACAGGGTAGCCTGGGACTACTACATGAGGTCGAACGAGAACCACA
                             aattaat  putative branch site (score: 3)
                                   ttccttccttgttgct  CT-rich tract
                           ttaattaattcctt  TA-rich tract