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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagacctagaaacaaaaacaatctctttcaagtgtatggtaattctcactgtgcaaaactttacctgaatatttatagctggttctctctgcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCACGATTCTTGAGATTTCCTG

Basic information

species Zea mays
transcript GRMZM2G006130_T05
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006130_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g03730.2 (Oryza sativa), 3'ss of exon 6
-----------------------------------------------aagacctagaaacaa-aaacaatctctttcaagtgtatggtaattctc--actgtgcaaaactttacctgaatatttatagctggttctctctgcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCACGATTCTTGAGATTTCCTG
                                               | | | | |       |  | |||| | |  |||||||| |||  ||   | | | ||     ||     | |  ||  | |   ||   | | |||| ||||||||||||||| ||||||||||||||||| ||| | ||||| || |||||||||||||||||||| ||||
gtacattatattttgttgtcaaacttcattactggaaaaggaaaacgatgccatgggctttttatgctatctatgtatagtgtatgataacactttaagtcttcatgggctttttcaagtgcttccaac--atttcttttacacatacagGGACATGGTTTTCGCACAGAACTTATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTG

upper sequence: GRMZM2G006130_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g03470.5 (Oryza sativa), 3'ss of exon 6
---------------------------aagacctagaaacaaaaacaatctctttcaagtgt--atggtaattct-cactgtgcaaaactttacctgaatatttatag----------ctggttct--------ctctgcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCACGATTCTTGAGATTTCCTG
                              ||    |||  ||||| || || |  |  | |  ||| ||  |||  |  ||| |  |    || | ||| || || |          ||| |||          | | ||||  |||||||||||||| ||||||||||| ||||| ||| | ||||| || |||||||||||||||||||| ||||
gtacattatattttgttatcaaacttcgttactggaaaaggaaaacgatatcatggactttttcatgctatctctatatagtgtatgataccacttaaatcttcatgggctttttctactgcttccaacatttcttttacacattcagGGACATGGTTTTCGCACAGAACTAATATCTATGATGTTGGACTTAAAACCACGATTCTTGAGATTCCCTG
















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|211353134|gb|FL044611.1|FL044611
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350735|gb|FL044608.1|FL044608
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350729|gb|FL044602.1|FL044602
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|32924412|gb|CF029224.1|CF029224
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|32924555|gb|CF029367.1|CF029367
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|32924548|gb|CF029360.1|CF029360
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350733|gb|FL044606.1|FL044606
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211221447|gb|FL389601.1|FL389601
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350724|gb|FL044597.1|FL044597
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350722|gb|FL044595.1|FL044595
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350723|gb|FL044596.1|FL044596
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211353135|gb|FL044612.1|FL044612
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|32924263|gb|CF029075.1|CF029075
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACC
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACC
EST: gi|8367922|gb|BE050867.1|BE050867
EST:     GAGTTGTATGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350730|gb|FL044603.1|FL044603
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211353132|gb|FL044609.1|FL044609
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|18963147|gb|BM660266.1|BM660266
EST:     ATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: ATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350725|gb|FL044598.1|FL044598
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350728|gb|FL044601.1|FL044601
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211150003|gb|FL374637.1|FL374637
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211079656|gb|FL402147.1|FL402147
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAANACACATACAAG                         GGACATGGTTTCCGCACANAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350734|gb|FL044607.1|FL044607
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|18661865|gb|BM501621.1|BM501621
EST:     ATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: ATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|91051534|gb|EB161952.1|EB161952
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350732|gb|FL044605.1|FL044605
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350727|gb|FL044600.1|FL044600
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211350731|gb|FL044604.1|FL044604
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|211353136|gb|FL044613.1|FL044613
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
EST: gi|32924256|gb|CF029068.1|CF029068
EST:     GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAG                         GGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA
genomic: GAGTTGTTTGGCTTGATCAAGTATCACTCATGCCTGAAGACACATACAAGgcatgttata ... gcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcactgtgcaaaactttacctgaatatttatagctggttctctctgcacacacagGGACATGGTTTCCGCACAGAACTTATATCCATGCTTTTGGATTTGAAACCACGATTCTTGAGATTTCCTG
 ttctcac  putative branch site (score: 2)
                                     ttctctctgc  putative PPT
                    tgaatatttata  TA-rich tract