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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGCTTGAAGGAGCCTACGCACTTATCTTTAAAAGCCCGCACTATCCCAATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaaagaacatccttatacccttcacaggcttttggtcagattacgagaaaattaaactaatcttttttgtgtgtttgtactcagctacagtttc...

Basic information

species Zea mays
transcript GRMZM2G005849_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 4
GCAGCTTGAAGGAGCCTACGCACTTATCTTTAAAAGCCCGCACTATCCCAATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaa---agaacatccttatacccttcacaggcttttggtcagattacgagaaaattaaactaatcttttttgtgtgtttgtactcagctacagtttc-
||||||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||||||||| ||||||  ||||||||| |||||||| || |||| |    |      |||| ||  |   |  | || |  |||    |    ||||    | | || ||| || |||||  | | |  |    |   || 
GCAGCTTGAAGGAGCCTACGCACTTATCTTTAAAAGCCCACACTACCCCAATGAATTGATTGCATGCAAACGGGGCAGCACACTGATACTCGGTGTCAATgtaagtgcatcctggtttgtcttaaactatcagctaggttctaatcaagc-atagtaaaac---agtgatttttattttgtgtaagaattatgtgttatgctct

upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g03900.1 (Oryza sativa), 5'ss of exon 4
GCAGCTTGAAGGAGCCTACGCACTTATCTTTAAAAGCCCGCACTATCCCAATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaa---agaacatccttatacccttcacaggcttttggtcagattacgagaaaattaaactaatcttttttgtgtgtttgtactcagctacagtttc
|||||||||||||||||||||||| |||||||||||||| ||||| |||||||||||||||||||||||||| ||||||  ||||||||| |||||||| || |||| |    |       ||| ||  |   |  | || |  |||      |  |||     | |  | | ||||||||     |  |  | ||   | | 
GCAGCTTGAAGGAGCCTACGCACTCATCTTTAAAAGCCCACACTACCCCAATGAATTGATTGCATGCAAACGGGGCAGCACACTGATACTCGGTGTCAATgtaagtgcatcctggtttgttttaaactatcagctaggttctaatcaagcatagtaaaacggtgatt--tttattttgtgtaagaatgatgtgttatgctct-

upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G47860.1 (Glycine max), 5'ss of exon 4
GCAGCTTGAAGGAGCCTACGCACTTATCTTTAAAAGCCCGCACTATCCCAATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaaagaacatcc--ttatacccttcacaggcttttggtcagattacgagaaaattaaactaatcttttttgtgtgtttgtactcagctacagtttc-
||| ||||||||||| || || ||||| || ||||| || || ||||| |||||||||||||| ||||| || || |||| |||| | || ||||| || || |||  ||    ||    | |||   |||  |   |  ||  |    |   |    ||    | ||| | |||| || |     | |   |||   |||| 
GCATCTTGAAGGAGCTTATGCCCTTATTTTCAAAAGTCCACATTATCCTAATGAATTGATTGCCTGCAAGCGTGGTAGCCCACTGCTGCTAGGTGTTAAAgtaagttgaatgcaatttagtaataagtttcttaaa-tagtgacctatatgtaaattgatctt-ccaatgtcttttttg-gcaacaattgttctattttttct

upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv13s0064g00050.t01 (Vitis vinifera), 5'ss of exon 4
GCAGCTTGAAGGAGCCTACGCACTTATCTTTAAAAGCCCGCACTATCCCAATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaaagaacatccttatacccttca--caggcttttggtcagattacgagaaaattaaactaatcttttttgtgtgtttgtactcagctacagtttc
||| |||||||||||||| || || || || ||||| | ||| ||||| |||||||||||||| |||||||| || || | | || | ||||| ||||| || ||| | |    | |  |||| |  | |  ||   |||||       |  |      ||   | | | ||| || || |    | ||  | ||       
GCATCTTGAAGGAGCCTATGCTCTCATTTTCAAAAGTCGGCATTATCCAAATGAATTGATTGCCTGCAAACGTGGTAGTCCATTGCTTCTTGGGGTCAAAgtaagttatatttgaacaatatatcactgaagcaaaattttgtcttatattggcattggttgctccactttttgttatgagccact-ctttgttatgaggc-

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|71771454|gb|DR969391.1|DR969391
EST:     ATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAAC                         GAATTGAGTGGTCAACAGAATGGGAAATCATTTCATGATGTCAAAACCTTG
genomic: ATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaaa ... tgtgtttcagGAATTGAGTGGTCAACAGAATGGGAAATCATTTCATGATGTCAAAACCTTG
EST: gi|149081060|gb|EE170160.2|EE170160
EST:     ATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAAC                         GAATTGAGTGGTCAACAGAATGGGAAATCATTTCATGATGTCAAAACCTTG
genomic: ATGAATTGATTGCATGCAAACGAGGCAGCCAACTGATACTTGGTGTCAACgtgagtgaaa ... tgtgtttcagGAATTGAGTGGTCAACAGAATGGGAAATCATTTCATGATGTCAAAACCTTG