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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctcttctaactttcctaacaaatcttttcaggaatctgatagatattttgctgatttttctccccgtcttaacagAACCTGCATTGCAGCCATACTTGAAGAACCTCTACACTTACATGTCAATATCAGGGCCTCACTTGGGTCACTGGTACAGTTCAAATTCTTTGTTCAATTC

Basic information

species Zea mays
transcript GRMZM2G176042_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G176042_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g06800.1 (Oryza sativa), 3'ss of exon 11
gtctcttctaactttcctaacaaat-cttttcagg-aatctgatagatattttgctgatttt-tctccccgtctt-aacagAACCTGCATTGCAGCCATACTTGAAGAACCTCTACACTTACATGTCAATATCAGGGCCTCACTTGGGTCACTGGTACAGTTCAAATTCTTTGTTCAATTC
|| |  || ||||| |  || |||| | || |||| ||  | ||    ||  |||| | |   |||   | | || || |||||| ||||| || ||||||||||||||||| ||||| ||||||||||||||||| || ||||||||  |||||||||| ||||| ||||| ||||| ||
gtattatccaacttactcaataaattccttccaggcaagttcatctcgatggtgctaactcaatctttgcatgttgaatagAACCCGCATTACAACCATACTTGAAGAACCTGTACACGTACATGTCAATATCAGGCCCACACTTGGGCTACTGGTACAGCTCAAACTCTTTATTCAACTC
















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|32868550|gb|CF008232.1|CF008232
EST:     TTTTGTCGGCCATTCCATTGGGAACATCATCATTAGAAGTGCCCTGGCAG                         AACCTGCATTGCAGCCATACTTGAAGAACCTCTACACTTACATGTCAATAT
genomic: TTTTGTCGGCCATTCCATCGGGAACATCATCATTAGAAGTGCCCTAGCAGgtctcttcta ... gtcttaacagAACCTGCATTGCAGCCATACTTGAAGAACCTCTACACTTACATGTCAATAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcttttcaggaatctgatagatattttgctgatttttctccccgtcttaacagAACCTGCATTGCAGCCATACTTGAAGAACCTCTACACTTACATGTCAATATCAGGGCCTCACTTGGGTCACTGGTACAGTTCAAATTCTTTGTTCAATTC
                            tgctgat  putative branch site (score: 3)
                                  tttttctccccgtctt  CT-rich tract
                  atagatatttt  TA-rich tract