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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcactattgcttgcacttttgctcatggatctggatctctctgttttgtatcgtttaaacatgttctggatgcaagtcatgagaccactgcgtttttgtttggtatgtacattccttctcgttgaagtacctaacacaaaaacacttttatgatattcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGATCCTCAGGTCAGCAAATTCCTTTATGAGAAAGCCAGCACGAAGGACAAGA

Basic information

species Zea mays
transcript GRMZM2G085438_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G085438_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g49380.1 (Oryza sativa), 3'ss of exon 7
gtcactattgcttgcacttttgctcatggatctg--gatctctctgttttgtatcgtttaaacatgttctggatgcaagtcatgagaccactgcgtttttgtttggtatgtacattccttctcgttgaagtacctaacacaaaaacacttttatgatattcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGATCCTCAGGTCAGCAAATTCCTTTATGAGAAAGCCAGCACGAAGGACAAGA
|||| | ||||||  || ||  ||  |  | | |  ||  || || || |  ||  || |    ||  ||||| ||||    ||  | |||| |  |||||     ||  ||||                     ||  | ||| |   ||||        ||  | |||| |  || |||||||||||||| |||||||| |||||| |||| ||||| || || |||||| ||||||| || |||||||| ||||| || |||||||
gtcagtgttgcttttaccttatctttttaagcggttgaattcccttttctaaattattcag---tgc-ctggaagcaaccattgccatcacttc--ttttgaaaaatagttaca---------------------aatgcgaaaccctcttta--------cttgacagATTTGTTCCCCATTGCTGATTCTCCACGGAGCAGCAGACTTGGTTACCGACCCCCATGTCAGCGAATTCCTGTACGAGAAAGCTAGCACAAAAGACAAGA
















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|71759858|gb|DR957795.1|DR957795
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|78123598|gb|DV541982.1|DV541982
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|110518313|gb|EE022900.1|EE022900
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATGGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCGGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|78082085|gb|DV510497.1|DV510497
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|40333901|gb|CK367971.1|CK367971
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|110523789|gb|EE027973.1|EE027973
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|86468691|gb|DY235061.1|DY235061
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|71759897|gb|DR957834.1|DR957834
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
EST: gi|37375743|gb|CF624330.1|CF624330
EST:     CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAG                         ATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT
genomic: CAGTTGAACTTTTAAAAGCCACGAAGGACATTGAATCACAGTTGGAAAAGgtcactattg ... tcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccttctcgttgaagtacctaacacaaaaacacttttatgatattcctatatagATCTCCTCTCCATTGCTGATTCTTCACGGAGCCGCAGACATGGTAACCGATCCTCAGGTCAGCAAATTCCTTTATGAGAAAGCCAGCACGAAGGACAAGA
                 acctaac  putative branch site (score: 2)
                                          tattcct  putative PPT
                          aaaaacacttttat  TA-rich tract