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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcagtttttactcaaattggtatttgtttttagatttttattatcatcatgcataccagactgagcacacttttttctctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCTCTGCCTAAATCAAAGGACTTCATGCCAACATTCCCTGCTCTTAATGAAC

Basic information

species Zea mays
transcript GRMZM2G179097_T05
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179097_T08 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g41100.6 (Oryza sativa), 3'ss of exon 6
-----gtgcagtttttactcaaattggtatttgtttttagatttttattatcatcatgcataccagactgagcacacttttttctctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCTCTGCCTAAATCAAAGGACTTCATGCCAACATTCCCTGCTCTTAATGAAC
     ||||   |  || |    ||   ||   ||| ||   |    | ||  | |   |   ||  |||||||||| | |||      |||||||  |||||||||| | |||| |  ||||  | ||||||  |||||||||||| |||||||||||||| ||||||||||||||||||||||| |||||| 
gtaatgtgctactgctattttttttttcatg-atttatatcatgcattcatatttaaatacttcaatctgagcacacctgttttggctttacagCGGTTATCAGCAGATGCTGCTTTGCAGCATGAGTGGTTCCGTGAAGTTCCTCTACCTAAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAAT
















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|18175293|gb|BM350660.1|BM350660
EST:     CTGCTGACTTATGACCCTGATAAG                         CGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
genomic: CTGCTGACTTATGACCCTGATAAGgtgcagtttt ... tctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
EST: gi|18163384|gb|BM333223.1|BM333223
EST:     GACTGCTGACTTATGACCATGATAAG                         CGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
genomic: GACTGCTGACTTATGACCCTGATAAGgtgcagtttt ... tctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
EST: gi|60398387|gb|DN231203.1|DN231203
EST:     AAGCTGGTTTTGATCTATTGAACAGACTGCTGACTTATGACCCTGATAAG                         CGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
genomic: AAGCTGGTTTTGATCTATTGAACAGACTGCTGACTTATGACCCTGATAAGgtgcagtttt ... tctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
EST: gi|32930695|gb|CF035507.1|CF035507
EST:     AAGCTGGTTTTGATCTATTGAACAGATTGCTGACTTATGACCCTGATAAG                         CGCATATCAGCAGACGATGCTCTGAAGCACAAATGGTTCTCTGAAGTTCCT
genomic: AAGCTGGTTTTGATCTATTGAACAGACTGCTGACTTATGACCCTGATAAGgtgcagtttt ... tctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
EST: gi|67026080|gb|CO454829.1|CO454829
EST:     AAGCTGGTTTTGATCTATTGAACAGACTGCTGACTTATGACCCTGATAAG                         CGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
genomic: AAGCTGGTTTTGATCTATTGAACAGACTGCTGACTTATGACCCTGATAAGgtgcagtttt ... tctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
EST: gi|18172736|gb|BM348124.1|BM348124
EST:     GACTGCTGACTTATGACCCTGATAAG                         CGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT
genomic: GACTGCTGACTTATGACCCTGATAAGgtgcagtttt ... tctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttttattatcatcatgcataccagactgagcacacttttttctctcgtacagCGCATATCAGCAGACGATGCTCTTAAGCACAAATGGTTCTCTGAAGTTCCTCTGCCTAAATCAAAGGACTTCATGCCAACATTCCCTGCTCTTAATGAAC
                                 cacacttttttctctc  CT-rich tract
     ttattatcat  TA-rich tract