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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaatgactaatatttttcattacgctcttatgaccttggattaatatttgtcattgcgactgaaaatgttgggattagggttacggaggtagca...

Basic information

species Zea mays
transcript GRMZM2G138425_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138425_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os08g42420.3 (Oryza sativa), 5'ss of exon 5
GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacga-atgactaatatttttcattacgctcttatgaccttggattaatat-ttgtcattgcgactgaaaatgttgggattagggttacgg---aggtagca
|| || |||||||| ||||||||||||||||||||||||||||||| |||||||||||  ||||||||| | || ||||||||||| || || |  | || |||   ||        || |  |  || |||||   | |   |  | || |||   || | | |||  ||   |   |  |  ||
GTCGTGAGCAACCCTGAGAAGACTCCACTTCATACTTTCTTCTGCAGCTATGACTTGACAGACATGCCTTCAGGGACCAAGgtacaagacattatgactaatttcagttttaaaa--ataaattgtgactaatagactttttctttggctcaaa---ttcgaaatagccttgaagcttacttgtca

upper sequence: GRMZM2G138425_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA19G26870.2 (Glycine max), 5'ss of exon 3
GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaatgactaatatttttcattacg---ctcttatgaccttgg-attaatatttgtcattgcg-actgaaaatgttgggattagggttacggaggtagca
||| ||||||| ||||| |||||||| ||||| |||||||| ||||||||||| ||||||||||||||   ||| ||||| |||   || |    | | |   | | ||     |||   ||| || |  |||   |||  | || ||  | |     ||    |  ||   |||     | |   
GTGCTAAGCAATCCAGAAAAGACTCCTCTTCACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCAGTTGGTACCAAAgtaa--gatttgtcagtctggctgaatatatgactcaattgatctggacattttcattcctaatggcataattgttctgacaaggctaaatttagctttgaa---

upper sequence: GRMZM2G138425_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G17450.1 (Glycine max), 5'ss of exon 9
GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaatgactaa-tatttttcatt-acgctcttatgaccttggattaatatttgtcattgcgactgaaaatgttgggattagggttacggaggtagca
||  | | ||| ||||||| ||| ||  | ||||| ||||| ||||| ||||| ||||||||||||||  |||| |||||||||   || ||  ||| ||| |  |||| |   |  | | | | || |   ||   | |   ||  |   ||       |  ||    ||   |   | |  
GTTCTCACCAATCCAGAGAGGACACCTATCCATACCTTCTTTTGCAATTATGATTTGAGTGACATGCCAGCTGGTACCAAGgtag--gattgggtaaatatatcacattcaaagttctgtcatcatgcaaccatcgatttgcatgtcatataattctcatgcctttttattttagtattggtt

upper sequence: GRMZM2G138425_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA16G05600.1 (Glycine max), 5'ss of exon 3
GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaatgactaatatttttcattacgctctta--tgaccttggattaatatttgtcattgcgactgaaaatgttgggattagggtta--cggaggtagca
||| ||||||| ||||| |||||||| ||||| |||||||| ||||||||||| ||||||||||||||   ||| ||||| |||   || |      | |   | | ||      |   |     ||||   || |||||   |        || ||||  ||  ||| | |     |  | | |
GTGCTAAGCAATCCAGAAAAGACTCCTCTTCACACTTTCTTTTGCAACTATGATTTGAGTGACATGCCGTTTGGTACCAAAgtaa--gatttgtccgtctggctgaatatatgactgacttgatctggac--atttttgttcctaatggcataattgttctgacaaggctaaatttaactttgga

upper sequence: GRMZM2G138425_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv14s0068g01450.t01 (Vitis vinifera), 5'ss of exon 3
GTGGTAAGCAACCCAGAGAAGACTCCACTTCATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacac--gaatgactaat--atttttcattacgctcttatgacct--tggattaatatttgtcattgcgactgaaaatgttgggattagggttacggaggtagca
||  | ||||| ||||||||||| || || ||  | ||||| ||||||||||| ||||||||||||||   ||| ||||| |||     |||||| || |  ||| ||   || ||| |  |         ||||  | |       |    || || ||||||| ||||   | |   ||      
GTTCTCAGCAATCCAGAGAAGACACCCCTACACTCGTTCTTTTGCAACTATGATTTGAGTGACATGCCAAGTGGTACCAAAgtaagttggaatgattactggattgttttctatgctttatttgttagacagattggtgtcctgacctttttcttaagatgttggaattatcttcatttag------

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|78108347|gb|DV526765.1|DV526765
EST:     AACTATGACTTGAGTGACATGCCTCCTGGAACCAAG                         ACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
genomic: AACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaat ... aacgagacagACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
EST: gi|211363226|gb|FL385763.1|FL385763
EST:     ATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTTCTGGAACCAAG                         ACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
genomic: ATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaat ... aacgagacagACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
EST: gi|211068522|gb|FL399012.1|FL399012
EST:     ATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG                         ACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
genomic: ATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaat ... aacgagacagACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
EST: gi|211107469|gb|FL390858.1|FL390858
EST:     ATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAG                         ACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT
genomic: ATACTTTCTTCTGCAACTATGACTTGAGTGACATGCCTCCTGGAACCAAGgtacacgaat ... aacgagacagACTTTCGTGCGGCAAAAGGTCACTCTCTCCCCCTCTGCCTTGCCTTCTAAT