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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccttgccctttcttctttgggacaattgtgattatacccttcgctggtcttgcaattgtgattttaccctccgttttccaactttgtgttcatagataagctattctggacaattcaatgttatagattagataggctcacaagcatttagctctgtggttgtgatgaaattgcacttataacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAGTTCCTCCAGTACCATCCAT

Basic information

species Zea mays
transcript GRMZM2G163233_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163233_T04 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os07g36470.1 (Oryza sativa), 3'ss of exon 6
gtatgccttgccctttcttctttgggacaattgtgattatacccttcgctggtcttgcaattgtgattttaccctccgttttccaactttgtgttcatagataagctattctggacaattcaatgttatagattagataggctcacaagcatttagctctgtggttgtgatgaaattgcacttataacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAGTTCCTCCAGTACCATCCAT
                                                                                       ||       ||  | |  ||| | |         ||| || |  | ||| | | ||||  | |||  |  | | | |   | |     |     ||  |  || |||||||||||| || || ||||||||||| ||||||||    ||||| || |||||||| || |||||||| ||||||||||||||||| |||||||| || |
---------------------------------------------------------------------------------------ttcaaacaaatgaaaaccctaatttatctg---taatttttttaagtag-tggactca--aacat--aaatattttgaaataacaccgtcaactttcaatttttgcagATTCTACGTGTGCTTATGACAATCATCGACACATCGGCCGACACGACTGCTCTTGCTGTCGCCTGCTATGACCTCTCACAGTTCCTTCAGTACCACCCTT
















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|5296291|gb|AI783061.1|AI783061
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAG                         ATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAGgtatgccttg ... aacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|409609|gb|T12671.1|T12671
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAAAATGATTTCCAG                         ATTCTGCGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAGgtatgccttg ... aacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|211345775|gb|FL379635.1|FL379635
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAG                         ATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAGgtatgccttg ... aacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|211415631|gb|FL375675.1|FL375675
EST:     CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAG                         ATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: CAAGTTTCTGGCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAGgtatgccttg ... aacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
EST: gi|32915729|gb|CF020541.1|CF020541
EST:     GCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAG                         ATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT
genomic: GCGTGAGAACATTAACAATTTTGAAGAGAATGATTTCCAGgtatgccttg ... aacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcacaagcatttagctctgtggttgtgatgaaattgcacttataacttggcagATTCTACGAGTTCTCATGACAATCATTGACACATCAAGTGACACCACCGCTCTTGCCGTGGCCTGCTACGACCTCTCACAGTTCCTCCAGTACCATCCAT
                                         ttataac  putative branch site (score: 2)
                                         ttataactt  TA-rich tract