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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgtttcttctttaatgacctatcctagtttgtttagtagccatttaatgttagtttgatctgataattactgctgaatttctgaggaact...

Basic information

species Zea mays
transcript GRMZM2G382104_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os04g58750.2 (Oryza sativa), 5'ss of exon 6
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgtttcttctttaatgacctatcctagtttgtttagtagccatttaatgttagtttgatctgataatta--ctgctgaatttctgaggaact-
|||||||| ||||| ||||| || |||||||||||||| || ||||| ||||| |||||||||||| |||| ||||| |||||||| |||||||| |||||| |||  ||| || ||| |  ||   | ||    || ||  |||||     |||     |  | | |||||   || |   | |||    ||| |  |  | 
AACCCTAGGCTTTCATGTTTTGGCCTCATGAAGAACAGTCGAGATGGTAAAAGCTACAGTACCAATCTGGCGTTTACTCCTCCAGAGTACATGAGAACTGgttggtaccttcttacttttcaaacatcgtaa---agcttaattagtctttctttgtgagtgttataatctgcacatgatctttctggtcgtctaataacgtt

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G01730.2 (Glycine max), 5'ss of exon 6
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttct------tgt-ttcttctttaatgacctatcctagtttgtttagtagccatttaatgttagtttgatctgataattactgctgaatttctgaggaact
|| ||||||||||| || |||||||| ||||| || ||  | ||||| |||||||||||||| ||||||||||| || || || |||||  ||||||| |||              | | || ||| | |   |   ||  || |   | |  ||  | | |  |   || |  | ||  | | ||||| ||   || | | ||   
AATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGAGATGGGAAAAGTTACAGTACAAATTTGGCATTCACTCCACCTGAATATCTGAGGACAGgtaccccctcacaagatatatttttcatcacaaaatcatgttactcaatcttctatgcctgtgcttggagatcaaact--ttagtactgatg--cttattaaga---

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA05G37870.1 (Glycine max), 5'ss of exon 7
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgtttcttctttaatgacctatcctagtttgt-ttagtagccatttaatgttagtttgatctgataattactgctgaatttctgaggaact---
|| ||||||||||| || |||||||| ||||| || ||  ||||||| | |||||||||||| |||||||| ||||| || || |||||  ||||||| |||    | ||         | || |   |    | |  |  | ||| | |   ||  ||||  ||      ||   || |    | | |  |   |    |   
AATCCTAGACTTTCATGCTTCGGTCTGATGAAAAATAGTAGGGATGGGAGAAGTTACAGTACAAATTTGGCGTTTACTCCACCTGAATATCTGAGGACAGgtac-ctcctcaaaaaagatatatttttcatcacgaaatcatgttactcgatcttctatgtctgt---gcttggagatcaaacttaagtacccatgcttattaa

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA07G07850.2 (Glycine max), 5'ss of exon 6
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgtttcttctttaatga--cctatcctagtttgtttagtagccatttaatgttagtttgatctgata-attactgctgaatttctgaggaact------------------------------------------------------------
|| ||||| |||||  |||| ||||| ||||| || ||| ||||||| |||||||| || || |||||||||||||| |||||||| ||  | || ||||||  |     |      | |||  | |    | ||||  ||| ||  ||       |||| ||   ||||     |  ||| |   | ||||| | |  | |                                                             
AATCCTAGGCTTTCAAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTTAGAACTGgtatgccatataacagattttttgttagttttgtccttctttcttatgttcaacactaatattcaattgaaaatctgtattgcatttaaattttttacaatcatttatgttttagtagagtggagtgatacatggtttcttatttctctttgtttttttgtag

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA03G01300.2 (Glycine max), 5'ss of exon 6
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgt---ttcttctttaatgacctatcctagtttgtttagtagccatttaatgttagtttga---tctgataattactgctgaatttctgaggaact---------------------------------------------------------
|| ||||| |||||  |||| ||||| ||||| || ||| ||||||| |||||||| || || |||||||||||||| |||||||| ||  | || ||||||  |  |  |     || || ||   |      | || | || | |   | |  | |||| ||   ||||   ||||      | |    |||||   |  |  |                                                         
AATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCAGAACTGgtatgccttataacagtttttgttagttttttccttctggcttatgtt-caacactataatattcaattgaaaatctgtatcgcatttaaaaatttacaatcatttatgttttagtagagtggagtgatacatgatttcttatatctcttctttgttttgtag

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S122_66V6.1 (Physcomitrella patens), 5'ss of exon 5
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtg--ggtttcttg--tttcttctttaatgacctatcc--tagtttgtttagtagccatttaatgttagtttgatctgataattactgctgaatttctgaggaact
 | ||  | || || ||||| || |||||||||||||| || ||||||||||| || ||||||||| |||| |  || || || |||||| | || ||||||   |   || ||  | | || ||  ||    |||     | |||||| | |     ||| |  ||   |   |||||  |||  || |   |   |  | |   
GATCCGCGCCTCTCTTGTTTTGGCCTCATGAAGAACAGTCGCGATGGAAAAAGCTATAGTACCAATCTGGCCTACACTCCCCCTGAATACTTAAGAACTGgtaccgaaatcctgaatgttttgttggattgtttattgaacaatttgtt-attgttactttcaatttgcatcattctgacgattcttggtacttcattttgcag--

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S156_133V6.1 (Physcomitrella patens), 5'ss of exon 5
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgtttcttctttaatgacc---tatcctagt---ttgtttagtagccattta----atgttagtttgatctg---ataattactgc-tgaatttctgaggaact---------------------------
 ||||  | || |||||||| || ||||||||||||||| | ||||| ||||| ||||| |||||| |||| |  || ||||| || ||| | || || |||      |   || | |||||   || |   |||   ||     ||   | |||| ||||     ||||||  |  ||      |||||   ||| ||  | |||  || ||                            
GACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGGAAAAGCTACAGCACCAATCTGGCTTACACTCCTCCTGAGTACTTAAGAACAGgtatcccacggtttccctctttctggatcgaatatttgagcaacctggaaattagcaatttctattatgttaaatgtatgcatgcataatgtatgcatgcttctctttggtacgtgacaaatgtcataagagggtttgcag

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 5'ss of exon 5
AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttcttgtt-----tcttctttaatga-cctatcctagtttgtttagt-agccat---ttaatgttagtttgatctgataattactgctgaattt------ctgaggaact--------------------------------------------------------
 ||||  | || |||||||| || ||||||||||||||| | ||||||||||| ||||| ||||||||||| |  || ||||| || ||| |||| || |||      ||| ||     ||||||   | || | | |    |  || |  || ||| ||   ||  | || ||  |||| |||  | |||||  || |         |||||||                                                         
GACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGAAAAAGCTACAGCACCAATTTGGCTTACACTCCTCCTGAGTACTTGAGAACAGgttaacaactttttgggcatcttctgggaagagcttgtgagggaatggtgggttagctatatttttgtcttcgtaagatc-gatgttcactgcctaagtcaatcggtcgaggaaccctggaactcccgtgattctgtttggtcagtgacggtcatttttcgatattttgcag

upper sequence: GRMZM2G382104_T02 (Zea mays), 5'ss of exon 6
lower sequence: PP1S178_86V6.1 (Physcomitrella patens), 5'ss of exon 5
------AACCCTAGACTTTCCTGTTTCGGTCTCATGAAGAACAGCCGGGATGGAAAAAGTTACAGTACCAATTTGGCATTTACGCCTCCA-GAATACATGAGGACTGgtgg----gtttcttgtttcttctttaat--gacctatcctagt--ttgtttagtagccatttaatgttagt-----------------ttgatctgataa--ttactgctgaatttctgaggaact-----------------
       | ||  | || ||||| ||||| ||||||||||||||||  |||||||| || ||||||||||| |||||||  || || ||| || ||| | || ||||||      || |   | ||  |  |  ||  |  | || || |   || ||  | | | |   ||  |||                   | ||| |  ||   |||||  || ||| |||||   ||                 
GAGGGGGATCCACGTCTCTCCTGCTTCGGCCTCATGAAGAACAGCCAAGATGGAAAGAGCTACAgtaccaacttggcatacacccccccatgagtacttaagaactggtaacgaagtctgaagcttggtaatgtatttgcgcaattctggacattattacggacctacccaaaattaccaacattcaaagcagccctggatttagtatgcttact-ttggattcctgagattcttgtattcaaatttgcag

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|211173516|gb|FK981111.1|FK981111
EST:     AAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTG                         GACGTATCACTCCTGAAAGTGTCATATACAGCTTTGGAACCTTGCTGATTG
genomic: AAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttct ... ttacatgcagGACGTATTACTCCTGAAAGTGTCATATACAGCTTTGGAACCTTGCTGATTG
EST: gi|211173514|gb|FK981109.1|FK981109
EST:     AAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTG                         GACGTATCACTCCTGAAAGTGTCATATACAGCTTTGGAACCTTGCTGATTG
genomic: AAGTTACAGTACCAATTTGGCATTTACGCCTCCAGAATACATGAGGACTGgtgggtttct ... ttacatgcagGACGTATTACTCCTGAAAGTGTCATATACAGCTTTGGAACCTTGCTGATTG