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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggacccaggacctttggctcagtgggaaaggcttcttaccactatgccaggtttgtccttctgatgaaatacagactaataattttcataatttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAA

Basic information

species Zea mays
transcript GRMZM2G109315_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109315_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g16550.1 (Oryza sativa), 3'ss of exon 1
ggacccaggacctttggctcagtgggaaaggcttcttaccactatgccaggtttgtccttctgatgaaatacagactaataattttcataattttt--gtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAA
 ||        |   | || | ||       ||  ||| |  |  | | | |  |   | | ||   | |      |     ||||  ||||||||   |||||||||||||||||||||||||||||||| ||||||||||| || ||  ||||||||||||||||| ||||||| ||||||||||||||||||||||| |
tgatttgttgacacagacttactgtatggaactgtttatcttttggtctgat--gaaatgcggactgatttttatttttatttttttgtaatttttctatagGAAGTTCATGACTACCTGAAAAGCCTTTGTCCTGATCTCCATATAACCAGAGGTGAATATGATGAGGATGCTCGTTACCCAGAGACTAAGACACTTACTA

upper sequence: GRMZM2G109315_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv17s0000g05880.t01 (Vitis vinifera), 3'ss of exon 1
ggacccaggacctttggctcagtgggaaaggcttcttaccactatgccaggtttgtccttctgatgaaatacagact--aata-attttcataatt-tttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAA
      | |    |||| |   |||||  |   | |      | ||      ||  | |  ||  |||| |  ||||  | || ||| | || ||  |||| |||| |||||||| ||| |||||| |||||| |||||  | || |||||  ||||||||||||||||| |  | || ||||||||||| || |||||||| |
--gtgtatgtaaattggttt--tgggattgctctatccatgttttgttgtagtttacttgatgtagaaaaagtgacttcattacattctaatgatggtttgcagGAGGTTCATGATTACTTGAAAACCCTTTGTCCTGACATGCATATTACCCGAGGTGAATATGATGAGGAGACACGTTACCCAGAGACCAAAACACTTACCA
















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|211369493|gb|FL308198.1|FL308198
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211324416|gb|FL327320.1|FL327320
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACCGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|40485903|gb|CK394797.1|CK394797
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211540228|gb|FL317088.1|FL317088
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|71325100|gb|DR799237.1|DR799237
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211190733|gb|FL329958.1|FL329958
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211009571|gb|FL317975.1|FL317975
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211176838|gb|FL323305.1|FL323305
EST:     TGCCCGGCAAGAYCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211232898|gb|FL333506.1|FL333506
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211118698|gb|FL310241.1|FL310241
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|22546134|gb|BU098454.1|BU098454
EST:     TGCCCGGCAAGATCCAACACATCATCTGCTCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211020754|gb|FL319300.1|FL319300
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACCGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211344906|gb|FL339319.1|FL339319
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211158843|gb|FL334296.1|FL334296
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211193895|gb|FL366183.1|FL366183
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211401794|gb|FL336231.1|FL336231
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACCGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211043425|gb|FL323570.1|FL323570
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACCGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211532406|gb|FL360254.1|FL360254
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211021189|gb|FK989215.1|FK989215
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211069123|gb|FL302738.1|FL302738
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211406260|gb|FL311353.1|FL311353
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAAGCCTTTGCCCTGATCTCCACATTACTGG
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAA-GCCTTTGCCCTGATCTCCACATTACTGG
EST: gi|211333590|gb|FL352906.1|FL352906
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211090965|gb|FL320634.1|FL320634
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|71448803|gb|DR829853.1|DR829853
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211069125|gb|FL302740.1|FL302740
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211010276|gb|FL346585.1|FL346585
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211402417|gb|FL355659.1|FL355659
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211464686|gb|FL320048.1|FL320048
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACCGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|47961557|gb|CN844266.1|CN844266
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|87157240|gb|DY402029.1|DY402029
EST:     TGCCCGGCAAGATCCAACACATCATCTGCTCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211069126|gb|FL302741.1|FL302741
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|211531168|gb|FL316567.1|FL316567
EST:     TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
EST: gi|21987376|gb|BQ778904.1|BQ778904
EST:     TGCCCGGCAAGATCCAACACATCATCTGCTCTGGCAACCTCTGCATCAAG                         GAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA
genomic: TGCCCGGCAAGATCCAACACATCATCTGCGCTGGCAACCTCTGCATCAAGgtatccttta ... atttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccaggtttgtccttctgatgaaatacagactaataattttcataatttttgtagGAAGTTCATGACTACCTGAAAAGCCTTTGCCCTGATCTCCACATTACTGGAGGTGAATATGATGAGTATGCTCGATACCCAGAGACTAAGACACTTACAA
                            gactaat  putative branch site (score: 2)
                                              tttttgt  putative PPT
                     aaatacagactaataa  TA-rich tract