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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaagccatgccttgcataatatttgtttaaatgcacatataataaatgtattattaacctgtcctccgtctccttcctaatagtctcgatcatgtatgtcacaactattattgacagaatttaaattcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGAGACCTTTTGAGTACCTAAGGCTTACTAGCTTGGGGGTCATTGGTGCTCT

Basic information

species Zea mays
transcript GRMZM2G045331_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G045331_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g52340.1 (Oryza sativa), 3'ss of exon 6
gtaacaagccatgccttgcataatatttgtttaaatgcacatataataaatgtattattaacctgtcctccgtctccttcctaatagtctcgatcatgtatgtcacaactattattgacagaatttaaattcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGAGACCTTTTGAGTACCTAAGGCTTACTAGCTTGGGGGTCATTGGTGCTCT
                                   |   ||||  | ||||     | |||     | |    ||| |   |  | || ||  | |   ||  ||   |  |   | |     |||   ||||||||||||||||||||  ||||||||||||| ||| | || ||||||||||| || ||||||||||| |||||  | || || ||| |||| ||||| ||||| ||
-----------------------------------tcttcataaga-aaataacacactaaagaaccttttagctcttgttt--ttgtttctgtgaaaaattccatttccctctctcattttcttttg-ttcttttcagCTCATATTCCCCTGTACCTGTACCCATTCTTGAATACTACCAGCAAGACAAGACCTTTTGAATACCTGCGACTCACCAGCCTGGGTGTCATCGGTGCACT

upper sequence: GRMZM2G045331_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT5G12980.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaacaagccatgccttgcataatatttgtttaaatgcacatataataaatgtattattaacctgtcctccg-tctccttcctaatagtctcgatcatgtatgtcacaactattattgacagaatttaaattctt----ttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGAGACCTTTTGAGTACCTAAGGCTTACTAGCTTGGGGGTCATTGGTGCTCT
                                            |   |   | ||  |  | |       | |||| ||  | | |     | |    |||   |    ||   || | ||  | |   || |     | |||| ||| | ||||||||||||||  ||||| | || ||  | |||||| | ||||| |||||||||||  |||| |||||||||||||| |||||||| ||
--------------------------------------------agccaccttgttggtctctttctgattgatctcatttattagatgtgtgtttggctataatatgcttaaagtttaaagtctgttgcttttcaaaatacagCCCATCTGCCATTGTACCTGTATGCTTTCTTGAATACATCAAGCAAATCAAGACCGTTTGAGTACCTGCGGCTGACTAGCTTGGGGGTTATTGGTGCACT

upper sequence: GRMZM2G045331_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 6
gtaacaagccatgccttgcataatatttgtttaaatgcacatataataaatgtattattaacctgtcctccgtctccttcctaatagtctcgatcatgtatgtcacaactattattgacagaatttaaattcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGAGACCTTTTGAGTACCTAAGGCTTACTAGCTTGGGGGTCATTGGTGCTCT
                       |   ||  |||  |||  | || |   ||  |||| ||    |     |  |   | ||| || | |  ||| | | | |   |||         || | |||   | |||| |||| || || || ||||||||||||||||||||||| || |  |||||| | || |||||||||||| | || || |||||| | || || ||||||||| |
----------------------gtgcatgcgtaa--gcatgtgta-tgtgtgccttatgaa---atttaatgatttgattctactaattt--atcttctttttgctaac---------caaactttttctcctttgcagCCCACATACCCTTGTACCTGTACCCTTTCCTCAATACCAATAGCAAATCTAGGCCTTTTGAGTACTTGAGACTAACTAGCCTAGGTGTTATTGGTGCTTT

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|211200410|gb|FL096663.1|FL096663
EST:     TCTGCAGTGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TCTGCAGTGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|78123053|gb|DV541437.1|DV541437
EST:     TGTGTTGCATCGCACCCTGAGACCAAGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACGTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|76281973|gb|DV021541.1|DV021541
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|78088708|gb|DV517101.1|DV517101
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|60350887|gb|DN217860.1|DN217860
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTTCCTAAATG                         CTCATATTCCATTGTACCTG
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTT-CCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTG
EST: gi|149048884|gb|EE048384.2|EE048384
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|31351237|gb|CD435594.1|CD435594
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|78091209|gb|DV519583.1|DV519583
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|71445883|gb|DR826933.1|DR826933
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|31356490|gb|CD440847.1|CD440847
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|76936740|gb|DV174858.1|DV174858
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|31354815|gb|CD439172.1|CD439172
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|74233595|gb|DT641509.1|DT641509
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA
EST: gi|91056772|gb|EB167190.1|EB167190
EST:     TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATG                         CTCATATTCCATTGTACCTGTACCCTTTCCTCACCACTACCAGCAAAACGA
genomic: TGTGTTGCATCGCACCCTGAGACCAGGATCCTTTTCCTAAATGgtaacaagcc ... ttcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtctcgatcatgtatgtcacaactattattgacagaatttaaattcttttcagCTCATATTCCATTGTACCTGTACCCTTTCCTCAACACTACCAGCAAAACGAGACCTTTTGAGTACCTAAGGCTTACTAGCTTGGGGGTCATTGGTGCTCT
                            tattgac  putative branch site (score: 2)
                                             ttcttttc  putative PPT
                         tattattgacagaatt  TA-rich tract