Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctctgctctgacagcgccagcggcagcgcctacgccggccattttcggcctgggttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag

Basic information

species Zea mays
transcript GRMZM2G055216_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G055216_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g39280.1 (Oryza sativa), 5'ss of exon 2
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctctgctctgacagcgccagcggcagcgcctacgccggccattttcggcctgggttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag
|||||||||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||| || |||||||||||||||||||| ||||| ||||||  |  |   |   ||    || |        | | |  |  |      ||| | ||  ||    || |    ||   | |||   |     |||  |||||| ||
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCCCTCGTCGCCAACACGTCCATCACCGGGATGAACCTTAGTCTCATGCTCAACTCCGTCGGTTTCTATCAGgtat-tgtatatt-tactaggttgcccat-ttgcctggaatgtttgtatatgccgtcttgtgctcttgt-gtggctgaaggtgcgaaacct---ctgcaaacctgtag

upper sequence: GRMZM2G055216_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G45700.1 (Glycine max), 5'ss of exon 2
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctctgctctgacagcgccagcggcagcgcctacgccggccattttcggcctgggttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag
 || ||  | ||||||||  | |||||||| || || ||||| |  || ||||| ||||||||| | |||||||||||||||||||| || |||||||| ||| |       | || |  | | |||    ||    || ||| |   | |   |  ||     |   || ||||| |          |  |   | |     |  | 
TGTTCCTATGTGGGAGCTTATTTGGTTCTCACTGGTTGCCAATATGTCTATCACGGGGATGAACTTTAGCCTCATGCTCAACTCCGTTGGATTCTACCAAgtatg---gttttacttttatatcaca-tatcatgttcatcgcttggactgtttaactttaattttcttttcttgtttagaatttcatccaa---tagtctttttaa-

upper sequence: GRMZM2G055216_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G00210.2 (Glycine max), 5'ss of exon 2
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctctgctctgacagcgccagcggcagcgcctacgccggccattttcggcctgggttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag
 || ||  | ||||||||  | |||||||| || || ||||| |  || ||||| ||||||||| | |||||||||||||||||||| || |||||||| ||| |       |         | |  ||     |||     | |           ||||    |  |    |  |         |   | ||         || |  
TGTTCCTATGTGGGAGCTTATTTGGTTCTCACTGGTTGCCAATATGTCTATCACGGGGATGAACTTTAGCCTCATGCTCAACTCCGTTGGATTCTACCAAgtatg---gttttatatcatgttcatcgcttggacggttaaactttaat---tttctttcttattaagaatttcatccaataatctttttaaaatccccttgcttc--

upper sequence: GRMZM2G055216_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT5G42420.1 (Arabidopsis thaliana), 5'ss of exon 2
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctct--gctctgacagcgccagcggcagcgcctacg--ccggccattttcggcctggg---ttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag
 || ||  | ||||||||  | ||||||||  | ||||| ||   ||| ||  | |  |||||| |||| ||||||||||| ||||| ||||||||||| |||  | || |  | |||      |||             |    ||  |    |  ||| |   | ||  |   ||| ||  |||    |     |     ||   |   |   
TGTACCTATGTGGGAGCTTATTTGGTTCTCCATTGTCGCTAATGTCTCTATTGCTGCTATGAACTTCAGTCTCATGCTCAATTCCGTTGGCTTCTACCAAgta-attcatctcgatctcgatcttgagcatatagaatcaaattgctttgatttgagcatatatagactttgattttggtttagtggattcacatttttttgtgttgattag---

upper sequence: GRMZM2G055216_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT5G42420.2 (Arabidopsis thaliana), 5'ss of exon 2
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctctgctctgacagcgccagcggcagcgcctacgccggccattttcggcctgggttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag
 || ||  | ||||||||  | ||||||||  | ||||| ||   ||| ||  | |  |||||| |||| ||||||||||| ||||| ||||||||||| |||  | || |  | |||        |||         ||   | |          |||  || |   | |  | ||     |  |   || |          |    
TGTACCTATGTGGGAGCTTATTTGGTTCTCCATTGTCGCTAATGTCTCTATTGCTGCTATGAACTTCAGTCTCATGCTCAATTCCGTTGGCTTCTACCAAgta-attcatctcgatctcgatcttgagcat-----atagaatcaaattgctttgatttgagcatatatagactttgattttggtttagtggattcacattttttt--

upper sequence: GRMZM2G055216_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S116_49V6.1 (Physcomitrella patens), 5'ss of exon 3
CGTCCCGCTCTGGGAGCTCGTCTGGTTCTCTCTCGTCGCCAACACCTCCATCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacaccctgctctgctctgacagcgccagcggcagcgcctacgccggccat--tttcggcctgggttgcttgtgtgcgcgcgtggctgaagctgggaacctgcag-------------------------------
  | ||  | |||||  |  |    |||||  | ||| | || || ||||||    | |||||||||||||||||||||||||| || |||||||| |||||  ||||    ||    ||  ||| |  || ||  ||    | ||  |  ||  |    |  |  || |      |     || |      || |     |   | ||                                
GATTCCTATTTGGGATTTATTTCTTTTCTCATTAGTCTCAAATACTTCCATCGTTAGTATGAACCTCAGCCTCATGCTCAACTCTGTGGGCTTCTATCAGgtcagtac----tgtcacgccatgaaactgc-agtcgcgattcttaatcatgctgtgacctttgattgcgaaatcagaagatgctctcttgcgatgtacttagatttcaagtaataacgttgtttctcgattgtgagacag

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|50337879|gb|CO533005.1|CO533005
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|149008482|gb|EE040648.2|EE040648
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|50337628|gb|CO532754.1|CO532754
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|211053522|gb|FL140432.1|FL140432
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|71318582|gb|DR796050.1|DR796050
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAA                         ATCTCCAAACTGAGCATGATTCCCGGTGGTCTGCCTCATGGCATGGGT
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCC-GGTGGTCTGCCTCATGGAATGGGT
EST: gi|211053523|gb|FL140433.1|FL140433
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|91869654|gb|EB400482.1|EB400482
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|211056459|gb|FL140439.1|FL140439
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATG
EST: gi|71314415|gb|DR793832.1|DR793832
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|78082074|gb|DV510486.1|DV510486
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|211053525|gb|FL140435.1|FL140435
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|71436404|gb|DR817454.1|DR817454
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|86466628|gb|DY232998.1|DY232998
EST:     TCACCGGGATGAACCTCAGCCTCGTGCTCAACTCCGTCGGCTTCTACCAT                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|76935918|gb|DV174533.1|DV174533
EST:     TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|149101076|gb|EE187177.2|EE187177
EST:     CACCGGGATGAACCTCAGCCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACTGAGCATGATTCCCGTGGTCTGCCTCATGGAATGGGTGCTG
genomic: CACCGGGATGAACCTCAGCC-TCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACTGAGCATGATTCCGGTGGTCTGCCTCATGGAATGGGTGCTG
EST: gi|211053524|gb|FL140434.1|FL140434
EST:     TCACCGGGATGAACCTYAGCCTCATGCTCAACTCCGTCGGCTTCTACCAG                         ATCTCCAAACT
genomic: TCACCGGGATGAACCTCAGCCTCATGCTCAACTCCGTCGGCTTCTACCAGgtacgtacac ... gaacctgcagATCTCCAAACT