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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggccttttctgactagattctatgatgcacaagatataaactgatctccacaatctgaaaagctataattttaatttcttcattttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACGCCAGCACTTCTTAAAGATTACAGACACATGCTTGAACTTGCACCTCGTC

Basic information

species Zea mays
transcript GRMZM2G007871_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G007871_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g24180.1 (Oryza sativa), 3'ss of exon 7
gttggccttttctgactagattctatgatgcacaagatataaactg--atctccacaatctgaaaagctataattttaatttcttcattttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACGCCAGCACTTCTTAAAGATTACAGACACATGCTTGAACTTGCACCTCGTC
||||| |||||    |||  |  ||||   |||||  |   | |||  |  |    |||||   |||||  ||| |   | || || |  | ||||||||||| ||  |||||||||| || |||||| | |||||||| |||||||| |||||  | || || |||||||| |||||||||||||||||||||||||
gttggtctttttctgctaagtgttatggcacacaaacttatatctgtgacatgacaaatcttgcaagctcaaatatc--tgtcatc-tactcttgcagATGGAGCTTTTGATTCAGGCTCACCTCACTGGAGAGTCATTTGCTTTGACACCAGCGTTACTGAAGGATTACAGGCACATGCTTGAACTTGCACCTCGTC
















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|32838158|gb|CD977836.1|CD977836
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|22715113|gb|BU197585.1|BU197585
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|26559135|gb|CA831370.1|CA831370
EST:     TTAAGACAGAACAAGCAAAGATCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|22935564|gb|BU571839.1|BU571839
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|26560014|gb|CA832249.1|CA832249
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|32837602|gb|CD977280.1|CD977280
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|87156492|gb|DY401281.1|DY401281
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|32836675|gb|CD976353.1|CD976353
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|22542214|gb|BU092652.1|BU092652
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|87157186|gb|DY401975.1|DY401975
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
EST: gi|87157024|gb|DY401813.1|DY401813
EST:     TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAG                         ATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG
genomic: TTAAGACAGAACAAGCAAAGTTCTGGAAGCAGCATCCATCACTAGTAAAGgttggccttt ... tttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactgatctccacaatctgaaaagctataattttaatttcttcattttattgcagATGGAACTGCTGATTCAGGCGCATCTCACTTGTGAGTCATTCGCTTTGACGCCAGCACTTCTTAAAGATTACAGACACATGCTTGAACTTGCACCTCGTC
                              ttttaat  putative branch site (score: 3)
                                    tttcttcattttatt  CT-rich tract
                 tgaaaagctataattt  TA-rich tract