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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acagactcacttgcatctgtagtattaatgaataattgttttaactctgttgtattctgtaggaaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG

Basic information

species Zea mays
transcript GRMZM2G467059_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g30800.1 (Oryza sativa), 3'ss of exon 2
acagactcacttgcatctgtagtat--taatgaataattgttttaactctgttgtattctgtaggaaaacaagt-atgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
      |      || || | |  |  | ||  | |||| |||| |||| | | |  ||||| || || ||| | | | |      |||     ||||||||||||||||||||| ||||| ||||| || || |||||||| || ||||||||||| ||||| ||||| ||||||||||| |||
-tctgttggtcgacaccttttgcttggttatctagaattatttttactcagcttt--tctgtgggcaagcaaattaagcttgataatttcgttgcttttacagGCCAGAAATGGTGGTAGGTTGGTACCATTCCCATCCTGGATTTGGTTGCTGGCTTTCAGGAGTTGACATCAATACTCAACAG

upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g16190.1 (Oryza sativa), 3'ss of exon 2
acagactcacttgcatc-tgtagtattaatgaataattgttttaactctgttgtattctgtagg---aaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
|||  |||| |   ||  | ||| |||| |   || || | || || | ||||| ||  |   |   ||    | | ||| |  | || | |   |||| |||| ||||||||||| || |||||||||||||| |||||||| || || || ||||| ||||| ||||||||||| |||||||||
acactctcagtctgatgatctagaattatt---tacttttatttacaccgttgtttttaggctgtttaacgtgattttgtggccacttgtgttatcttt-acagACCAGAAATGGTGGTGGGCTGGTATCACTCCCATCCTGGATTTGGATGTTGGCTTTCAGGTGTTGATATCAACACTCAGCAG

upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S46_324V6.1 (Physcomitrella patens), 3'ss of exon 2
----acagactcacttgcatctgtagtattaatgaataattgttttaactctgttgtattctgtaggaaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
      | | |   || |||  |||   | || |  | ||   |   | | |||  ||   |    |||| ||  |   |     | || ||    || | ||| ||||| ||||| || |||||||| || || ||||| || || ||||||||| | || ||||| ||||||||||||||||||
ctacttatatttgatt-catgcgtaaactgaacg--tgatgtgtacgaatatgtc-taaaatactagaaatcaccttgatgcctgtgttgtttgtgttctgcagACCAGAGATGGTGGTGGGCTGGTACCATTCTCATCCAGGTTTTGGTTGCTGGTTGTCTGGCGTGGATATCAATACTCAGCAG

upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S181_105V6.1 (Physcomitrella patens), 3'ss of exon 3
acagactcacttgcatctgtagtattaatgaataattgttttaactctgttgt--attctgtaggaaaacaagtatg---ttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
      |    ||  |  ||   | |  ||||||| |  |   | |    | |  ||  | |    |  |  || ||   || |  |  |||   |  ||| |||||||||||||||||| ||||||||||| |||||||| || || ||||||||| |||| || || ||||| |||||||| |||
-----gttgaatgtgtgagtgtcagttgtgaataaattctcagatttaactatgaatcatatctagattccggtgtgcatttaaattgctttgtgcacttttcagGCCAGAAATGGTTGTGGGCTGGTATCATTCACATCCAGGTTTTGGTTGCTGGTTATCTGGTGTGGATATAAATACTCAACAG

upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ33925 (Selaginella moellendorffii), 3'ss of exon 2
acagactcacttgcatctgtagtattaatgaataattgttttaactctgttgtattctgtaggaaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
                                    |    || ||    |   ||   | ||| | |  || |  | ||||| |||||  ||    ||||   |||||||||||||| ||||| || || |||||||| || || ||||||||||| || || || ||||| || ||||| 
-----------------------------------gtacgctagctaaact---ttggattggacaccgcgttttctcagattattttctgctc---cagGAGTGAAATGGTTGTAGGATGGTACCATTCTCATCCTGGTTTTGGCTGCTGGCTATCCGGAGTAGACATCAACACCCAGCAA

upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ16494 (Selaginella moellendorffii), 3'ss of exon 2
acagactcacttgcatctgtagtattaatgaataattgttttaactctgttgtattctgtaggaaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
                                |  || |   |  | | || | |  ||| || |  ||||| ||   |  ||||||          |||  | |||||||||||||| |||||||| ||||||||||| ||||| |||||||| || || ||||||||||||||||| |||
-------------------------------gttcttatcacatttttcttttctcttgt-gggattcaagtgtg---aagtttttt---------gcagATCGGAAATGGTTGTAGGATGGTATCATTCACATCCTGGATTCGGGTGCTGGCTTTCTGGAGTTGATATCAATACTCAACAG

upper sequence: GRMZM2G467059_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ37436 (Selaginella moellendorffii), 3'ss of exon 2
acagactcacttgcatctgtagtattaatgaataattgttttaactctgttgtattctgtaggaaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
                                    |    || ||    |   ||   | | | | |  || |  | ||||| |||||  ||    ||||   |||||||||||||| ||||| || || |||||||| || || ||||||||||| || || || ||||| || ||||| 
-----------------------------------gtacgctagctaaact---ttggattgaacacctcgttttctcagattattttctactc---cagGAGTGAAATGGTTGTAGGATGGTACCATTCTCATCCTGGTTTTGGCTGCTGGCTATCCGGAGTAGACATCAACACCCAGCAA

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|211418133|gb|FL144508.1|FL144508
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211410492|gb|FL144474.1|FL144474
EST:     ACCACGTTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         -CCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: ACCACGT-CTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|94477725|gb|EB706683.1|EB706683
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|13389019|gb|BG462517.1|BG462517
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211407935|gb|FL144457.1|FL144457
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211413033|gb|FL144478.1|FL144478
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         -CCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|76282592|gb|DV022160.1|DV022160
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|148939805|gb|EC884507.2|EC884507
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211415593|gb|FL144502.1|FL144502
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCYG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|148966377|gb|EE017372.2|EE017372
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|149103923|gb|EE289338.2|EE289338
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|149026686|gb|EE046095.2|EE046095
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211407927|gb|FL144449.1|FL144449
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|17970155|gb|BM276920.1|BM276920
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|78091827|gb|DV520201.1|DV520201
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211413037|gb|FL144482.1|FL144482
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211410486|gb|FL144468.1|FL144468
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         -CCAGAAATGGTTNTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|78104620|gb|DV523038.1|DV523038
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGCTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|148951536|gb|EC897265.2|EC897265
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211405380|gb|FL144445.1|FL144445
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
EST: gi|211405377|gb|FL144442.1|FL144442
EST:     GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAG                         GCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG
genomic: GACCACGTCTTCCAGACAAACATGCTTGACATGCTCAAGCAGACCGGCAGgtagggttcc ... ccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgttgtattctgtaggaaaacaagtatgttgagatttttttccccttttacagGCCAGAAATGGTTGTAGGCTGGTATCACTCACATCCTGGCTTCGGTTGCTGGCTATCAGGCGTTGATATCAATACTCAGCAG
                                    tttttttcccctttta  CT-rich tract
                                 agattttttt  TA-rich tract