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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGACGAAATGGCGCTGTCCACGACGAACACGAACGCCGCCGAGTCGCAGCTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagacgtcccgccagctgatgaatgtatccggggccggggactgtgggggagtgcgacgcgacgacagctgatcgattgttgttgacgcacccggccag

Basic information

species Zea mays
transcript GRMZM2G101069_T01
intron # 1
splice site 5'
intron type U2

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|74232649|gb|DT640563.1|DT640563
EST:     CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAG                         GTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
genomic: CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
EST: gi|71433668|gb|DR814718.1|DR814718
EST:     CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAG                         GTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
genomic: CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
EST: gi|74242398|gb|DT650312.1|DT650312
EST:     CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAG                         GTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
genomic: CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
EST: gi|71314902|gb|DR794072.1|DR794072
EST:     CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAG                         GTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
genomic: CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
EST: gi|78084684|gb|DV513077.1|DV513077
EST:     CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAG                         GTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
genomic: CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
EST: gi|71765903|gb|DR963840.1|DR963840
EST:     CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAG                         GTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT
genomic: CTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCAT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 291

AGGACGAAATGGCGCTGTCCACGACGAACACGAACGCCGCCGAGTCGCAGCTGCACTGCTCCACCTTTGCGTCGCGCTACGTGCGCACCGCGCTGCCGAGgtacgtagac ... acccggccagGTTCAAGATCCCGGAGCAGTCGATCCCCAAGGAGGCGGCGTACCAGATCATCAACGACGAGCTGATGCTGGACGGGAACCCGCGGCTGAACCTGGCGTCG




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