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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaatctctagaatgagtttcctttcttaactaagataaatttatttaggtgttttgttctcacattcttttgtttctgtttatatttagGCGCTTATCGTTGAGTTCCTTGGCAAGTTTGCCTCAACGGTAAGGCTAAGTTGGCAGTTGTGGTTGGTATCGATAGGTCTTGCTTTCTTCGGGTAAGGTT

Basic information

species Zea mays
transcript GRMZM2G140328_T04
intron # 31
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G140328_T04 (Zea mays), 3'ss of exon 31
lower sequence: LOC_Os04g51610.1 (Oryza sativa), 3'ss of exon 31
----------------------------gtagaatctctagaatgagtttc-----ctttcttaactaagataaatttatttaggtgttttgttctcacattcttttgtttctgtttatatttagGCGCTTATCGTTGAGTTCCTTGGCAAGTTTGCCTCAACGGTAAGGCTAAGTTGGCAGTTGTGGTTGGTATCGATAGGTCTTGCTTTCTTCGGGTAAGGTT
                             ||  || |||   |   |   |     || | |  |   || | |||| || ||| | | || ||  |       ||    |||||| || |  |||||||||| ||||||||||||||||||||| | || ||    || || |  ||||||||||||||||| || |||||||| || || ||  |        
gtagaaaacccaccgtaataattcctccttactatatctgttactgggccctatagctgtttatatggagctgaattgatctagatctgttattggc-------ttcacatctgttaatgtgcagGCGCTTATTGTTGAGTTCCTTGGCAAGTTTACATCGACAACCAGACTCACCTGGCAGTTGTGGTTGGTGTCAATAGGTCTCGCCTTTTTTAG--------

upper sequence: GRMZM2G140328_T04 (Zea mays), 3'ss of exon 31
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 3'ss of exon 31
----------------------------gtagaatctctagaatgagtttc-----ctttcttaactaagataaatttatttaggtgttttgttctcacattcttttgtttctgtttatatttagGCGCTTATCGTTGAGTTCCTTGGCAAGTTTGCCTCAACGGTAAGGCTAAGTTGGCAGTTGTGGTTGGTATCGATAGGTCTTGCTTTCTTCGGGTAAGGTT
                             ||  || |||   |   |   |     || | |  |   || | |||| || ||| | | || ||  |       ||    |||||| || |  |||||||||| ||||||||||||||||||||| | || ||    || || |  ||||||||||||||||| || |||||||| || || ||  |||||| | 
gtagaaaacccaccgtaataattcctccttactatatctgttactgggccctatagctgtttatatggagctgaattgatctagatctgttattggc-------ttcacatctgttaatgtgcagGCGCTTATTGTTGAGTTCCTTGGCAAGTTTACATCGACAACCAGACTCACCTGGCAGTTGTGGTTGGTGTCAATAGGTCTCGCCTTTTTTAGGTAAGCTC
















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|67041185|gb|CO467440.1|CO467440
EST:     CAGGGAACCATCTGTTTATTGGCATCATAGCTATAACAGNTGTACTCCAG                         GCGCTTATTGTTGAGTTCCTTGGCAAGTTTGCCTCAACGGTAAGGCTAAGT
genomic: CAGGGAACCATCTGTTTATTGGCATCATAGCTATAACAGTTGTACTCCAGgtagaatctc ... ttatatttagGCGCTTATCGTTGAGTTCCTTGGCAAGTTTGCCTCAACGGTAAGGCTAAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaatttatttaggtgttttgttctcacattcttttgtttctgtttatatttagGCGCTTATCGTTGAGTTCCTTGGCAAGTTTGCCTCAACGGTAAGGCTAAGTTGGCAGTTGTGGTTGGTATCGATAGGTCTTGCTTTCTTCGGGTAAGGTT
                      ttctcac  putative branch site (score: 2)
                              ttcttttgtttctgtt  CT-rich tract
                                 ttttgtttctgtttat  TA-rich tract