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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggttgactgtgcatgctgctaaagcttggcactcacaaatctgttgctcaatttgtttgctgctttcttgttgttcaacttaatatttgacct...

Basic information

species Zea mays
transcript GRMZM2G108829_T02
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os02g47220.3 (Oryza sativa), 5'ss of exon 6
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgta--atatg-----gttgactgtgcatgc--tgcta--aagcttggcactcacaaatctgt---tgctcaatttgtttgctgctttcttgttgttcaa-----cttaatatttgacct----------------------------------------------------
|||||||||| ||||||||||||||||| ||| |||||||||| |||||||| |||||||| || |||||  |||||      |    |||  ||||  || |   | | || | | ||||  |||| |   || |     ||| |  ||      |||| |||       |||| ||| |  | |                                                    
ATATGTGGGCTATGGGTGCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAGgtataatatgcatatatcatatgtatatgcattgttgttatgatttgtagtcacgtatctctctgtgtttgccatgtattttgggcatctgttattctgtctctcttattatatttcttctttgtggtggtcatatttgctcattgctgttctctttatccaactgtttag

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA16G08080.1 (Glycine max), 5'ss of exon 8
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggttgactgtgcatgctgctaaagcttggcactcacaaatctgttgctcaatttgtttgctgctttcttgttgttcaacttaatat---ttgacct----
||||||||||||||||||| ||||||||||||||||| || |||| |||||| || || ||  | ||||| ||   ||  || |  | |   | |   ||   ||||     | ||      | || ||  || |  |||    | | | ||   ||||    ||||       
ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAGgtatta-acttccctctcta-gtctccatttctctccacttctgcaact----tcccatatgactg-tatttttagttggataaaaccaataaatattgattaagga

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA01G35190.1 (Glycine max), 5'ss of exon 8
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggttg--actg--tgcatgctgctaaagcttggcactca-caaatctgttgctcaatttgtttgctgctttcttgttgttcaacttaatatttgacct
| ||||||||||||||||| |||||||||||| | ||  | || | |||||| || || ||  | ||||| |  | ||   |||   | |   |  | |||   |||   | | |  |      ||  || | | ||       |          || |||  |  |     
ACATGTGGGCAATGGGTGCTATAATGGCTGAGCTTTTCTCTCTTCGTCCTCTTTTCCCAGGTGCCAGgtatttagcttctcacttactccccccctccaaatgatggtttttaactgagaaagagcaaaaatagattttcatcatggaaaacaaaaatttagcagct-----

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA09G34610.1 (Glycine max), 5'ss of exon 8
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggttgactgtgcatgctgctaaagcttggcactcacaaatct--gttgctcaatttgtttgc-tgctttcttgttgttcaacttaatatttgacct
||||||||||||||||||| |||||||||||| | ||  | || | |||||| || || ||  | ||||| |  | ||  |  | |      ||    | |   | | |    | |    ||   ||   |      |   || |  |     ||   || | ||     
ATATGTGGGCAATGGGTGCTATAATGGCTGAGCTTTTCTCTCTTCGTCCTCTTTTCCCAGGTGCCAGgtatttagcttctcactccccctccctcccccatcctaatgatggtttttaactgagaaaagagcaaaaatagattttcatcagggaaaaaaaaaattag---

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA16G17580.1 (Glycine max), 5'ss of exon 8
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggttgactgtgcatgctgctaaagcttggcactcacaaatctgttgctcaatttgtttgctgctttcttgttgttcaacttaatatttgacct-----
||||||||||||||||||| ||||||||||||||||| || || | |||||| || |||||  | ||||||||   |   || | ||     ||    |       |   |  |  |||    ||      |    |||  ||   |        ||| |||||        
ATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAGgtaataactt---ctctccacttaacttc--ccatatgattgtattttagttagataaaaccaataaatcttgattaaggaattcacaaatctttgattcctggg

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: AT5G45430.2 (Arabidopsis thaliana), 5'ss of exon 10
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaat-----atggttgactgtgcatgctgctaaagcttggcactcacaaatctgttgctcaatttgtttgctgctttcttgttgttcaacttaatatttgacct
|||||||||| |||||||| || ||||| ||| ||||| | || |  ||||||||||||||| ||||||| |     |||||||| ||     | |   |           |    | |  | |||| ||       |    | ||   || || | | |   |        
ATATGTGGGCGATGGGTGCTATTATGGCGGAGCTGTTGTCTCTTCGCCCTCTCTTTCCTGGAGCTAGgtatttgtcaatggttgattgaattagttctaattagacaatgtttcagatttagatgctaaaccataaggtcaatgtcaccttattaatccttgcag-------

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 5'ss of exon 8
ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggttgactgtgcatgc-tgctaaagcttggcactcacaaatctgttgctcaatttgtt-tgctgctttcttgttgttcaactta-atatttgacct
||||||||||||||||||| || |||||||| ||||| || |||| |||||||||||| ||| | |||||| ||| ||   |   | | | | |||    ||||   |  |   |   ||   | | || |  ||    || |  || ||| |  ||| ||| ||||   
ATATGTGGGCAATGGGTGCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAGgtaa-atgtttttttcccctttccttctaggtattggtttttcccttttgcttttactagttatggtgtatgttgcacgtggttaattttacataattgaa--

upper sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 11
lower sequence: Vv09s0070g00320.t01 (Vitis vinifera), 5'ss of exon 3
--ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaa-----tatggttgactgtgcatgc--tgctaaagcttggcactc--ac---aaatctgttgctcaatttgtttgctgctttcttgttgttcaacttaatatttgacct--
  ||||||||||||||||| | || |||||||| ||||| || |||| |||||||||||| ||| | ||  ||     |    || ||     ||||  || || |  | |||| ||  ||   ||||   | |  | |     ||    ||| ||  |  |   |  ||  | ||  |    
CGATATGTGGGCAATGGGTACTATCATGGCTGAATTGTTTACTCTCCTTCCTCTCTTTCCAGGATCGAGTGAAGCAGATGAAATTTACAAAATATGCAATgttatatatgggcagtccaacttaaaattcatgggccgagggacttaa-acttgctaatgctatcaactaccaattcccacag

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|60349468|gb|DN216441.1|DN216441
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|211496286|gb|FL041698.1|FL041698
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG                         TGAAGCTGATGAGATTCACAAGATAT
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATAT
EST: gi|32871065|gb|CF010747.1|CF010747
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|32932540|gb|CF037352.1|CF037352
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|71304777|gb|DR788504.1|DR788504
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|31350422|gb|CD434779.1|CD434779
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|32870331|gb|CF010013.1|CF010013
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|32869779|gb|CF009461.1|CF009461
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|67011156|gb|CO439905.1|CO439905
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
EST: gi|211496285|gb|FL041697.1|FL041697
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTC
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTC
EST: gi|5932684|gb|AW057045.1|AW057045
EST:     GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACCAG                         TGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA
genomic: GCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAGgtaatatggt ... tactatttagTGAAGCTGATGAGATTCACAAGATATGCAATGTCATCGGTAGTCCAGATGA