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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatccaaaatccagagataacaactttgaataaataagaaaacttacaattaattttcatggcag

Basic information

species Zea mays
transcript GRMZM2G101438_T04
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g52420.1 (Oryza sativa), 5'ss of exon 4
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatccaaaatccagagataaca-------actttgaataaataagaaaacttacaattaattttcatggcag---
||| ||||| || ||||||||||| || |  ||||||||||||||||| ||||||||||| |||||||||||||| || || ||||||||||| ||||| ||||||||||||||||   |||||||||       |||    | | ||||||||  |   |||| |  | | | |      
ATACCCTTCGCCACTTGGTTATTGCGGTTTTCCAAAGAGTGTCTGCACCTCAGTGAATGAGTGCATCTGTCATGGTATACCTGATTCTCGTCCTCTTGAAgtaagccatccaaaatt-ggagataacacacacatactgcatacatataagaaagttacaaattgacctcctttgttacag

upper sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA01G39200.1 (Glycine max), 5'ss of exon 4
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagcc-atccaaaatcc---agagataacaactttgaataaataagaaaacttacaattaattttcatg-gcag
||| || || ||||| || ||| || | |  || |||||||||||||| || || ||||||||||| || ||||| || || ||||| ||| ||||||||||    | || |||  ||      || |||  |   ||  | || || ||    |  |   | | || ||  ||||
ATACCCATCTCCTCTCGGCTATGGTAGTTTTCCTAAGAGTGTCTGCACATCTGTAAATGAATGCATTTGCCATGGAATACCAGATTCCCGTGCCCTTGAGgttcttctatacaagttcttttgaagttaaacatcctgtgtgaaaaaaaatttgttgacacattctttatttgcag

upper sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT4G37040.1 (Arabidopsis thaliana), 5'ss of exon 4
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatccaaaa-------tccagagat--aacaactttgaataaata------agaaaacttacaa-----ttaattttcatggcag
 |||||||| |||||||||||| | || | ||| || ||||| ||||| || |||||||||||||| || ||||| || || |||||  | || ||||||||  ||  |   |||       |  || |    ||||  |||  ||   |       |  || ||||  |     ||  ||    ||||||
TTATCCTTCGCCTCTTGGTTATGGAGGTTTCCCGAAAAGTGTTTGCACATCTGTGAATGAATGCATTTGCCATGGTATACCAGATTCAAGACCACTTGAGgtgcgcttttttaaaaggtgtttgtaggggctaaacagatttttatctctgtcccttatgaatcttaataatgtattgtttcctttggcag

upper sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv07s0031g00820.t01 (Vitis vinifera), 5'ss of exon 4
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatcc---aaaatccagagataacaactttgaataaataagaaaacttacaattaattt-tcatggcag-----------------------
 || ||||| || || || ||| ||||||  |||||||| |||||||| ||||||||||||||||| || ||||| || || ||||| ||||| ||||||||      | |   |  |   |||  |    |    |  |   ||||  |   |    |||| |  |||   ||                        
GTACCCTTCCCCCCTAGGCTATGGTGGATTTCCAAAGAGCGTCTGCACATCAGTGAATGAATGCATTTGCCATGGAATACCAGATTCCCGTCCACTTGAGgtctattttacttaaggacttagatttcttgagccagtgtggttaagtcattgtgtttttaagtagtcaaatcacttatacaaaattgtcatttgcag

upper sequence: GRMZM2G101438_T02 (Zea mays), 5'ss of exon 4
lower sequence: PP1S90_139V6.2 (Physcomitrella patens), 5'ss of exon 4
ATATCCTTCACCTCTTGGTTATTGTGGATACCCAAAGAGTGTCTGCACTTCAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagcc---atccaaaatccagagataaca-actttgaataaataagaaaacttacaattaattttcatggcag-------------------------
 |||||||| |||||||||||| |  | |  |||||||| || || || || || ||||| |||||||||||||| ||||| || || ||||| ||||||||  |     |   | |||| || | |  |     | ||| |  || |||    |  |   |   |   ||  ||                         
TTATCCTTCTCCTCTTGGTTATGGAAGTTTTCCAAAGAGCGTTTGTACCTCTGTAAATGAGTGCATCTGTCATGGCATTCCTGACTCCCGTCCACTTGAGgttggtttggaaatacaatctagtgctctcttgggtcgaaaacttatgaaccgctctagcgaccctgggtgatagtgcgaagtcttagtttgctggtcac

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|78075681|gb|DV504115.1|DV504115
EST:     CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAG                         GATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
genomic: CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatc ... ttcatggcagGATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
EST: gi|101399011|gb|EB821378.1|EB821378
EST:     CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAG                         GATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
genomic: CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatc ... ttcatggcagGATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
EST: gi|76912468|gb|DV164746.1|DV164746
EST:     CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAG                         GATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
genomic: CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatc ... ttcatggcagGATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
EST: gi|71436246|gb|DR817296.1|DR817296
EST:     CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAG                         GATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
genomic: CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatc ... ttcatggcagGATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
EST: gi|148995508|gb|EE034697.2|EE034697
EST:     CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAG                         GATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT
genomic: CAGTGAATGAATGCATCTGTCATGGGATTCCGGATTCTCGTCCCCTTGAGgtaagccatc ... ttcatggcagGATGGAGATATCATCAATATTGATGTTACTGTCTACCTCAAT