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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctttttatttacctgctgctcgtggtcaacaccacatttacttcagccttggttcgtggttcatgcttctgtaatgttctgtttatgtgatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGGTATACTCCTGAACGTTCTGTTGGTTTTATGTGCATTACAACTATTCTGGTGTAGGCA

Basic information

species Zea mays
transcript GRMZM2G102230_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G102230_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g56960.1 (Oryza sativa), 3'ss of exon 2
ctctttttatttacctgctgctcgtggtcaacaccacatttacttcagccttggttcgtggttcatgcttc---tgtaatgttctgtttatgtgatatt-gcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGGTATACTCCTGAACGTTCTGTTGGTTTTATGTGCATTACAACTATTCTGGTGTAGGCA
   |   |  |   ||  || || |  |   |  || | |||| | | |   ||||  ||| | ||| |||   | ||||||||  ||  ||| | ||| ||||||||||||||||| ||||||||||| ||||||||||||||||                                                          
--ttacctgctgttctcttgatcct--ttgtctacagaattacctaatcacaggtttatgggttatggttcaattctaatgttcctttggtgtcacatttgcagACAATGCTGGAGTCATTGTGAACCCCAAGGGAGAGATGAAAG----------------------------------------------------------

upper sequence: GRMZM2G102230_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S62_136V6.1 (Physcomitrella patens), 3'ss of exon 2
ctctttttatttacctgctgctcgtggtcaacaccacatttacttcagccttggttcgtggttcat-gcttctgtaatgttctgtttatgtgatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGGTATACTCCTGAACGTTCTGTTGGTTTTATGTGCATTACAACTATTCTGGTGTAGGCA
     | |  |     || |  |   |          |  |  |   |   ||| |  | ||  |  |||   ||   |   || || || | |  ||||||||||||||| ||||| ||||| || |||||||| ||||| |                                                          
ggaggtatgatggtgagcggggctcagatggtgttgtaggttgtggtgggatggataattgtggagagctaacgttgagggatggtt-tgggtttgtgcagACAATGCTGGCGTGATCGTGAATCCGAAGGGAGAAATGAAGG----------------------------------------------------------

upper sequence: GRMZM2G102230_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S16_112V6.1 (Physcomitrella patens), 3'ss of exon 2
---ctctttttatttacctgctgctcgtggtcaacaccacatttacttcagccttg-gttcgtggttcatgctt-ctgtaatgttctgtttatgtgatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGGTATACTCCTGAACGTTCTGTTGGTTTTATGTGCATTACAACTATTCTGGTGTAGGCA
      |  | |||||  ||||  | ||  |||  | |   || |       |||| | |   | ||  |     |||| ||     |||| ||| || || |||| ||||| ||||| ||||||||||| |||||||| |||||||                                                          
gtctgttcctcatttatttgct--ttgtt-tcagtatctggttgatgaattgcttgcgattacgattgctatcgactgtcattgatggtttctgt-atctt-cagATAATGCCGGAGTAATTGTGAACCCCAAGGGAGAAATGAAAG----------------------------------------------------------

upper sequence: GRMZM2G102230_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S280_69V6.1 (Physcomitrella patens), 3'ss of exon 2
ctctttttatttacctgctgctcgtggtcaacaccacatttacttcagccttggttcg-tggttcatgct--tctgtaatgttctgtttatgtgatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGGTATACTCCTGAACGTTCTGTTGGTTTTATGTGCATTACAACTATTCTGGTGTAGGCA
   | |   || |  |  ||     |          || |   |  ||  || |  |  | ||| ||| |   ||||   | |||  |  | ||     |||||||||||||| || ||||| ||||| |||||||| |||||||                                                          
-attctaagttgaagtagtgtataagcctggagattcaatccttatagttttcgagcaatagttaatgatgacctgtttggatcttatgctttggc--cgcagACAATGCTGGTGTTATTGTAAACCCCAAGGGAGAAATGAAAG----------------------------------------------------------

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|211395589|gb|FK948944.1|FK948944
EST:     GCAGCGCAASC-ATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
EST: gi|211390336|gb|FK948917.1|FK948917
EST:     GCAGCGCAA-CCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         AACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagA-CAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
EST: gi|211027445|gb|FK948994.1|FK948994
EST:     GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
EST: gi|211027448|gb|FK948997.1|FK948997
EST:     GCAGCGCAA-CYATNGCGCCGAAAGGATGGTGTCTACATGTACTTTKAAG                         ACAATGCTGGAGTGATTGTNAACCCAAAGGGAGAGATGAAAGG
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
EST: gi|211395588|gb|FK948943.1|FK948943
EST:     GCAGCGCAAGCCATGGCGCCGAAAG-ATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGA
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGA
EST: gi|211398209|gb|FK948955.1|FK948955
EST:     GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGAACCCAA
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCCAA
EST: gi|211024991|gb|FK948982.1|FK948982
EST:     GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGA
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGA
EST: gi|211027447|gb|FK948996.1|FK948996
EST:     GCAGCGCAA-CCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGAACCCAWAGGGAGAGATGAAAGG
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
EST: gi|211390330|gb|FK948911.1|FK948911
EST:     GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGG
EST: gi|211390331|gb|FK948912.1|FK948912
EST:     GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAG                         ACAATGCTGGAGTGATTGTGAACCC
genomic: GCAGCGCAAGCCATGGCGCCGAAAGGATGGTGTCTACATGTACTTTGAAGgtacatttat ... gatattgcagACAATGCTGGAGTGATTGTGAACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagccttggttcgtggttcatgcttctgtaatgttctgtttatgtgatattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAGGTATACTCCTGAACGTTCTGTTGGTTTTATGTGCATTACAACTATTCTGGTGTAGGCA
                            taatgtt  TA-rich tract