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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacgtgtcctcaagtgacagtccgtctataaacagataatattagcaaagaaggcaggttttcctccatatgctaataaaatctcgtattcattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC

Basic information

species Zea mays
transcript GRMZM2G081848_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081848_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g07310.4 (Oryza sativa), 3'ss of exon 2
cacgtgtcctcaagtgacagtccgt-ctata-aacagataatattagcaaagaag--gcaggttttcctccatatgctaataaaatctcgtattcattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC
     || || |||||   | |  | |||   |||  | ||  |||| | | ||   |  |  ||||||    |   || | || |   || |   |||||||||||| |||||||||||||||||||| || || || || |||||||| || || |||||||||||||| |||||||||||||||||||| |||||||||||
----ggttctaaagtgtgtgacaatactaggtaacgtaaaaagttagtacataaatagacgtgtttcctgtccaaattactcaacttcggtctgtgttttgcagCCACTACTTTGACAAGCTGGCATCTCCTCGTTACATTTTGCTCTCTTCACGTGGCATTATGTATGAAGCTCTTTGAGCACAAACCTTTTGATGCAAGGAC

upper sequence: GRMZM2G081848_T05 (Zea mays), 3'ss of exon 2
lower sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 3
cacgtgtcctcaagtgacagtccgtctataaacagataatattagcaaagaaggcaggttttcctccatatgctaataaa--atctcgtattcattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC
  | |  ||    |||| | ||| |  || |  | |   |||      |        || |  ||   | |  | ||  |  |  |  |||| |  || |||| || ||||||||||||||||||||| |||| || || || || || ||||| |||||||| |||||  | ||||||||||| ||||| ||| || |  |
-tctttaccatgggtga-actccattcatgataacagtttatgcatggaatctcatagtctatctgtgtgtaatcatttattactttatattgaacttacagCAACTACTTTGACAAGCTGGCATCTTTTGGTGACATTTTGTTCACTTCATGTGGCATTATGGATGAAGTTTTTTGAGCACAAGCCTTTTGATCCACGAGC

upper sequence: GRMZM2G081848_T05 (Zea mays), 3'ss of exon 2
lower sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 2
cacgtgtcctcaagtgacagtccgtctataaacagataatattagcaaagaaggcaggttttcctccatatgctaataaaatctcgtatt--cattttg------cagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC
         |    || | ||    | |||| ||| |  |||   ||    | |||  |||     |||| ||||        |  | ||   ||||||      |||| || ||||||||||| ||||||||| ||||||| || || || || ||||| |||||||| |||||  | || || ||||| ||||| ||| || |  |
------cattttgatgtctgtgttgccataa-cagcttttat-gtcatcttatgcaattttgatctcataagctatctgttcttactcttgttattttgtatgtacagCGACTACTTTGACAAGTTGGCATCTTTTGGTCACATTTTGTTCCCTTCATGTGGCATTATGGATGAAGATGTTCGAACACAAGCCTTTTGATCCACGAGC

upper sequence: GRMZM2G081848_T05 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 3
------cacgtgtcctcaagtgaca-gtccg-tctataaacagataatattagcaaagaaggcaggttttcctccatatgctaataaaatctcgtattcattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC
       || | ||||| | | | |  |  | ||| |  |||| |  | ||   ||   || |  |  |||     |   |||   || | |||        |||||||||| ||||| || |||||||||||||||||||| || || ||||| ||||| ||| |||| |||||| | ||||||||||| ||||| || || ||  |
agtgaaaacttttcctccattcatatatttgctcttttcacagctgct-ttgttaatttagtcttgagttctcattttaactacccaactgtcga-------ttgcagCCACAACTTTAACTAGCTGGCATCTTCTGGTCACATTTTGTTCTCTTCATGTGGCACTATGGATGAAATTATTTGAGCACAAGCCTTTTGACGCTAGAGC

upper sequence: GRMZM2G081848_T05 (Zea mays), 3'ss of exon 2
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 3'ss of exon 3
cacgtgtcctcaagtgacagtccgtctataaaca-gataatatta-gcaaagaaggcaggttttcctccatatgctaataaaatctcgtattcatttt---gcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC
     |   | | | |  |      |  |||  |  || ||  ||  |   ||    |  |  | || | | ||  | ||   |||   || | | ||    |||| || || |||||||||||||||||||||||||| ||||| ||||| ||||| ||  |||| |||||| | ||||| |||||||| || |||||||   |
-----gctattaggcggtaacaaagcactaactataatgattgtatactttgataagatttgcttctacttgtggcattatcttctgtcatccgtctttgtacagCTACTACATTGACAAGCTGGCATCTTCTGGTCACTTTCTGTTCTCTTCATGTGGCTCTATGGATGAAATTGTTTGAACACAAACCATTTGATGCAAAAGC

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|101387228|gb|EB815631.1|EB815631
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|19351101|gb|BM895633.1|BM895633
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGGTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|89251400|gb|DY623186.1|DY623186
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|91050728|gb|EB161146.1|EB161146
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCACCTTTG                         CCCAC-ACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTTTCCCT
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCC-ACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCAT
EST: gi|148991600|gb|EE033131.2|EE033131
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|148967838|gb|EE019130.2|EE019130
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|148960883|gb|EE011564.2|EE011564
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|148932303|gb|EC875882.2|EC875882
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|148997312|gb|EE035807.2|EE035807
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|149012667|gb|EE042641.2|EE042641
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|50322320|gb|CO517446.1|CO517446
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|149110398|gb|EE190395.2|EE190395
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|71328578|gb|DR800947.1|DR800947
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|148936002|gb|EC880058.2|EC880058
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|149102837|gb|EE288179.2|EE288179
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|149105555|gb|EE291088.2|EE291088
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|87152152|gb|DY396941.1|DY396941
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGTTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|148995261|gb|EE034502.2|EE034502
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
EST: gi|149097659|gb|EE183556.2|EE183556
EST:     CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTG                         CCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG
genomic: CATCGTCATCTGCAACAAGGCTCTCATGAGCTCCCTCCGCTTCAACTTTGgtatgagatc ... cattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaagaaggcaggttttcctccatatgctaataaaatctcgtattcattttgcagCCACCACTTTGACAAGCTGGCATCTTCTGGTCACCTTCTGCTCTCTCCATGTAGCATTATGTATGAAACTCTTTGAGCACAAACCTTTCGATGCAAGGAC
                         tgctaat  putative branch site (score: 2)
                                           ttcatttt  putative PPT
                      atatgctaataaaat  TA-rich tract