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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagcatgcaccaatcattatctttgaatactttggttcatgatctaacaattactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATTGCGCGCTATG

Basic information

species Zea mays
transcript GRMZM2G059580_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059580_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g37440.1 (Oryza sativa), 3'ss of exon 3
gtaca-gcatgca-ccaatcattatctttg---aatactttggttcatg-----atctaacaattactctt--cagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATTGCGCGCTATG
|||   | ||| |    || ||||  ||||   ||||   ||  ||| |     |   |  ||| | ||||  ||| |||||||||||||||||||||| ||  ||||||||||||| |||||||| ||||||||||
gtatgcgaatgtaatttataattagatttgtccaataaagtgaatcagggagacagggactaatcattctttgcagATTCCTGTTCTGGAGACTCCTGAAGGTGCTGTTTTTGAGAGCAATGCTATCGCGCGCTATG
















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|31350377|gb|CD434734.1|CD434734
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|31356573|gb|CD440930.1|CD440930
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|19822159|gb|BQ048183.1|BQ048183
EST:     AACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTGTTTGAGAGTAATGCTATT
genomic: AACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|31356567|gb|CD440924.1|CD440924
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|22935604|gb|BU571879.1|BU571879
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|31351288|gb|CD435645.1|CD435645
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|26455900|gb|CA827483.1|CA827483
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|67012465|gb|CO441214.1|CO441214
EST:     GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaccaatcattatctttgaatactttggttcatgatctaacaattactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATTGCGCGCTATG
                                   atctaac  putative branch site (score: 2)
                                            ttactcttc  putative PPT
         attatctttgaata  TA-rich tract