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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaattaaagctaggaattcctacaatgcaatgcaatgcaatgcaatgaaatctcctgatgtaacggccggccagTGTTCTCTCTATCTTGCAGATAGTGATGGAGCTACCAGTTGAACATGGACTCCTCCTGGACAATCTCCTGGACCTTGCTCACGCTCCTTTCACACACACG

Basic information

species Zea mays
transcript GRMZM2G171390_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171390_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 6
---------------gtaaaattaaagctaggaattcctacaatgcaatgcaatgcaatgcaatgaaatctcctgatgtaacggccggccagTGTTCTCTCTATCTT--GCAGATAGTGATGGAGCTACCAGTTGAACATGGACTCCTCCTGGACAATCTCCTGGACCTTGCTCACGCTCCTTTCACACACACG-------------------
               || |   |  ||| |  |     |      |  | |  |||| | ||| ||  | | |||   | |             |  |||  ||| |   ||||||||||||||||||||||| || |||||||| || |||||||||||  | || |||||||| |||||||| || || ||                    
gtaaaaggagatcatgtcatgctgcagcaaccatactatgtggaactgtcctgtgcatttcaa-gatttttactggactgaaaagtaatggaattgttcttgatcatcaacagATAGTGATGGAGCTACCAGTGGAGCATGGACTTCTTCTGGACAATCTATTAGATCTTGCTCATGCTCCTTTTACTCATACATCCACCTTTGCCAAGGGTT

upper sequence: GRMZM2G171390_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 6
----------gtaaaattaaagctaggaattcctacaatgcaatgcaatgcaatgcaat--gaaatctcctgatgtaacggccggccagTG----TTCTCTCTATCTT--GCAGATAGTGATGGAGCTACCAGTTGAACATGGACTCCTCCTGGACAATCTCCTGGACCTTGCTCACGCTCCTTTCACACACACG-------------------
           | |  | | |     | | || | ||  |  |     | |  ||   |   |  | |  | |    || |      | ||    || |||  ||| |   ||||| |||||||||||||| || || |||||||| || |||||||||||  | ||  ||||||| ||||||||  | || |||                   
gtaaaacgaaatcatgtcatactgcagcaatcttccatggtgaaagtgtcctgtgtttttcaagttttttttactggactgtaaagtaatggaatttatcttcatcatcaacagATGGTGATGGAGCTACCGGTGGAGCATGGACTTCTGCTGGACAATCTATTAGATATTGCTCATGCTCCTTTTGCTCATACGTCCACCTTTGCCAAGGGTT
















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|71445817|gb|DR826867.1|DR826867
EST:     CTACCATCCCTTCTCTGCTGCCTCCTTCAGGATTTACGGTCCACGCAGAG                         TGTTCTCTCTATCTTGCAGATAGTGATGGAGCTACCAGTTGAACATGGACT
genomic: CTACCATCCCTTCTCTGCTGCCTCCTTCAGGATTTACGGTCCACGCAGAGgtaaaattaa ... ggccggccagTGTTCTCTCTATCTTGCAGATAGTGATGGAGCTACCAGTTGAACATGGACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacaatgcaatgcaatgcaatgcaatgaaatctcctgatgtaacggccggccagTGTTCTCTCTATCTTGCAGATAGTGATGGAGCTACCAGTTGAACATGGACTCCTCCTGGACAATCTCCTGGACCTTGCTCACGCTCCTTTCACACACACG
                                      atgtaac  putative branch site (score: 3)
                        aatgaaat  TA-rich tract