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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactggttaccatctggagttggaaggctggatgcacttttaatttttaacagagtttctgagaatgatccagtaagttctctatattctgtatctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG

Basic information

species Zea mays
transcript GRMZM2G495626_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G495626_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g67160.1 (Oryza sativa), 3'ss of exon 3
gtactggttaccatctggagttggaaggctggatgcacttttaatttttaacagagtttctgagaatgatccagtaagttctctatat-tctgtatc-tgt-atagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG
                             ||  | ||| | | || |     |   |||||||  ||| || || || |||  ||||| ||||| |  |||   |||||||||| ||||||||||||||||||||||||||||||||| |||||||||||||||| || ||||| || ||||| ||||| |||||||| |
-------------------------gtaatgtttacacatctcatctgggctaa--tttctgaacatgctctagcaatttccttatatgtctgttttgtgttgcagATTGTGACTCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGATCAACACATTACTCAACCGGTGTTGACATTTGGTCCGTTGGTTGCATCTTCG

upper sequence: GRMZM2G495626_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 1
--gtactggttaccatctg-gagttggaaggctggatgcacttttaatttttaacagagtttctgagaatgatccagtaagttctctatattctgtatctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG
  || || | |     ||  | | |         ||| ||  |  | | ||| |      |||  |   | ||  | ||  |  | | |  |    | |   | ||||||| || || |||||||||||||| || || ||||||||  | ||||||||||| || || || ||||||||||||||||||||||| ||||
gagttctagctgtttcctttgtgctctcttcagtgatccaaatggagtcttttat----cttcatatgcttat--aatatttcgtttttgcttgtaagcaaaacagATTGTCACGCTGTGGTACAGAGCTCCAGAGGTGTTGCTTGGCTCTACACATTACTCTACCGGTGTGGATATGTGGTCTGTTGGATGCATTTTTG
















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|149101462|gb|EE187582.2|EE187582
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|74238747|gb|DT646661.1|DT646661
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGAAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|101398284|gb|EB821015.1|EB821015
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|71450237|gb|DR831287.1|DR831287
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|71771339|gb|DR969276.1|DR969276
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|91055879|gb|EB166297.1|EB166297
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAACTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|87157025|gb|DY401814.1|DY401814
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|149085475|gb|EE174981.2|EE174981
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|76289583|gb|DV029151.1|DV029151
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|91872387|gb|EB402344.1|EB402344
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|22542240|gb|BU092678.1|BU092678
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|211362664|gb|FL128442.1|FL128442
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|32929643|gb|CF034455.1|CF034455
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACACTTTGGTA
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTA
EST: gi|32928347|gb|CF033159.1|CF033159
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACACTTTGGTA
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTA
EST: gi|149110996|gb|EE294495.2|EE294495
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|76294289|gb|DV033857.1|DV033857
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|71313277|gb|DR793172.1|DR793172
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
EST: gi|71431609|gb|DR812659.1|DR812659
EST:     TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAG                         ATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT
genomic: TGGGACTCGGTAGGGCTTTCACTGTGCCCATGAAAAGCTACACCCATGAGgtactggtta ... atctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacagagtttctgagaatgatccagtaagttctctatattctgtatctgtatagATTGTGACCCTTTGGTACAGAGCTCCTGAAGTTTTGCTTGGAGCAACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG
 ttttaac  putative branch site (score: 2)
                                 tctatatt  TA-rich tract