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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttcagattcttatgtgttactctgtatcgttttttctttacctattttttactatctgattgaatgtaactaacaccgtagtcatgtcatccttgtgtag

Basic information

species Zea mays
transcript GRMZM5G825902_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109785_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os12g05650.1 (Oryza sativa), 5'ss of exon 5
TGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtt-------tcagattcttat----gtgtt---actctgtatcgttttttcttt---acctattttttactatctgattgaatgta----actaacaccgtagtcatgtc-atccttgtgtag
 |||||||| ||||||||||||||||  || |||| ||| ||||||||  | || ||||||||||| ||||| |||||||||||||       ||| || ||| |    |||||   |   | || ||||  |  |||   | |  || ||   | | ||| | || |||    |||||| |  | |||  ||  ||     |||||
GGGGCGCAAAGTTGAGGACCCTGACACATTGGAAAAGATACGGCTAACAGTTATTAACAACCTTCTGCAGTATCATCCTgtatgttccgagcgtcacatccttttacttgtgtttagaacttctaccgttagtaattttggatccgttcttgtttttatgaatcaaagtatcaaactaactcatttgtctggttgatatgcatgtag

upper sequence: GRMZM2G109785_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv13s0147g00220.t01 (Vitis vinifera), 5'ss of exon 5
---TGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttcagattcttatgtgttactctgtatcgttttttctttacctatt-ttttactatctgattgaatgtaactaacaccgtagtcatgtcatccttgtgtag--------------------------------------------------
   ||| ||||| ||||| || |||||||||||||| || ||||| || || ||||||||||||||| |  |||| ||||| |||||| |  || |   |        ||  |   ||||| | ||||  | |  | |||||    |||  |||| ||  | |  |    |||  |  |     | |                                                    
TGATGGACGCAAAGTTGAAGATCCTGACATGTTAGAGAGAATTCGACTTACAATCATCAACAACCTTTTGAAGTATCATCCAgtatgtatttgagttgaacactaatttcactgatgttttatttttatttttagtcttactggtggatgaaatggaagaatcttcaccctcactttctttacatctctttcactgttgcatttcttttttaagtatccctttttggcatcctttctag

upper sequence: GRMZM2G109785_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S99_201V6.1 (Physcomitrella patens), 5'ss of exon 5
------TGGGCGCAAGGTTGAGGACCCTGACATGTTAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttcagattcttatgtgttactctgtatcgttttttctttacctattttttactatctgattgaatgt---aactaacac-cgtagtcatgtcatccttgtgtag
             || || ||||| |||||  || | |||   ||||| || |||||||| |||||||| || ||||||||||||||| |   |   |    |     ||| |||    |||||     | |    | | |  | | |||||| |  |   | || |    || ||  |||  |  | |      
GGATAACAACAAAAAAGTGGAGGATCCTGAGCTGCTGGAAGCCATTCGCCTTACCATCATAAACAACCTGCTTCAGTACCATCCTgtacgaacc---tgtcgaaaccctaccctga--tgttttccgagtcctctctctctcttttgtgattgcacatttcagctgaggtacggagatatgagacgcatt-----

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|116828950|gb|EC862572.1|EC862572
EST:     TAAAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT                         GAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGTGGATAAAACCTCC
genomic: TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttca ... ccttgtgtagGAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTG-GGATAAAACCTCC
EST: gi|60394317|gb|DN227187.1|DN227187
EST:     TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT                         GAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttca ... ccttgtgtagGAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|31356321|gb|CD440678.1|CD440678
EST:     TAACCATCATCAACAACCTTCTCCAGTACCATCCT                         GAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttca ... ccttgtgtagGAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|31353042|gb|CD437399.1|CD437399
EST:     TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT                         GAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttca ... ccttgtgtagGAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|6194493|gb|AW146597.1|AW146597
EST:     TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT                         GAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttca ... ccttgtgtagGAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
EST: gi|31360452|gb|CD444809.1|CD444809
EST:     TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCT                         GAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT
genomic: TAGAAAGGATTCGGCTAACCATCATCAACAACCTTCTCCAGTACCATCCTgtatgtttca ... ccttgtgtagGAATCAAGTGAGAAGTTAGCCATGGGTGAATTTTTTGGGATAAAACCTCCT