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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgatacactttgcataattcaatattgtgtttgagaccctgacgtacgtgtcactttaatagataattttacactgtagaattttgtttcttttgacgtttaccttttcacatatatccattctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCTCATCTTGGGAAATTCTATGGCATTCTGAATGGAATTGATCCAGATATAT

Basic information

species Zea mays
transcript GRMZM2G141399_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141399_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os08g09230.1 (Oryza sativa), 3'ss of exon 10
gtgagtgatacactttgcataattcaatattgtgtttgagaccctgacgtacgtgtcactttaatagataattttacactgtagaattttgtttcttttgacgtttaccttttcacatatatccattctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCTCATCTTGGGAAATTCTATGGCATTCTGAATGGAATTGATCCAGATATAT
|||||||    | | |    ||   | | || |  |  ||    ||  | |  | |||  ||| ||   ||  | | | | |    |||  | | ||   || | | | | |     | |  |||| | |||||||| ||| | || ||||||||||||||  |||||||||||||||| | |||||||| ||| ||||||||||| ||||| |||||||||||||||||||| |
gtgagtgcctgattgtcttgaag--agttttatcatctag--tttggtgcattt-tcatgtta-tatgaaaaataaaattat----tttcatatgttcaaacatcttcatgtctg--tcttgccataccttgcagGTTTCTCACACGTATTCAAAGGAAGTCGCAGGTCATGGTGCCATAGCTCCTCATCGTGGAAAATTCTATGGAATTCTCAATGGAATTGATCCAGATATCT
















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|33091960|gb|CF051954.1|CF051954
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCAACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATAGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
EST: gi|31361027|gb|CD445384.1|CD445384
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
EST: gi|31357767|gb|CD442124.1|CD442124
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
EST: gi|67022688|gb|CO451437.1|CO451437
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
EST: gi|37419287|gb|CF647322.1|CF647322
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
EST: gi|32933471|gb|CF038283.1|CF038283
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCAACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATAGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
EST: gi|24769423|gb|CA404552.1|CA404552
EST:     GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACT                         GTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT
genomic: GAGCGCATCATATTGGCAAAGCAATGAGATATTGTGATAAAGCCACAACTgtgagtgata ... ttctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagaattttgtttcttttgacgtttaccttttcacatatatccattctttgcagGTCTCTAATACATATTCAAAGGAAGTGTCAGGTCATGGTGCCATCGTTCCTCATCTTGGGAAATTCTATGGCATTCTGAATGGAATTGATCCAGATATAT
               ttttgac  putative branch site (score: 3)
                                         tccattcttt  putative PPT
     attttgtttctttt  TA-rich tract