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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacatcctaaatgcttaaaatatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA

Basic information

species Zea mays
transcript GRMZM5G801369_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g68260.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------------------------------------------------------------------------gtaagacatcctaaatgcttaaaatatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
                                                                                                             |||| ||||    |||||||||   |     ||   || |||  |     |||| ||| ||||   |  | | || |||||||||| ||||||||||||||||||||||| |||||||||||||| | ||| |||||||||||||||||||||||||||||| | |||||||||||||
gtaattacttagacaactagcatgtgtaaactgattgcattgaataagcatacaattgctttgttcaaaatagtcttcagaatagaaaaaaaaaacttatgttcaactataaggcatctatcatgcttaaacagttaactgagacatctatcatt-cacttcaaatttacatgccttat-tatatagTTTTCAGAAAACTTCACAATTATGTTGTTCCACTATGATGGTCGGACTAATGACTGGGATGAATTTGAGTGGTCAAAAAGGGCCATTCATGTGAGTGTCA

upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA12G29800.1 (Glycine max), 3'ss of exon 6
--------gtaagacatcctaaatgcttaaaa---tatgcgagga---atgatatattgtagtttttcagattcacatatgtc----ttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
        |   |||  |||  ||   ||| |   |||  |   |   |  || | || |  | ||  | |||      | ||    |  |||  ||||||| ||| | ||  ||||| || | || ||||||||||||||||| | ||| |||||| |||||||||||||||  |  ||  ||||||| ||||  |
gttattgagattgactaccttcatatataagaatttatttgtatatctaccatttcttattttcttcaaaattgctgactatcaaattgttctgtagTTTTCTGATGATTTTGCAATTTTGCTCTTTCATTATGATGGTCGGACTAGTGAATGGGATCAATTTGAGTGGTCAAGGAATGCAATCCATGTTAGTGCAA

upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA13G39990.1 (Glycine max), 3'ss of exon 6
-------------------gtaagacatcctaaatgcttaaaatatgcgaggaatgatatattgt--agtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
                    | | | ||   || |  ||   ||||        | |||| || |  |   || | || |  || ||   |  |||  ||||||| ||| | ||  ||||| || | || ||||||||||||||||| | ||| |||||| |||||||||||||||  || ||  ||||||| || |  |
gttattgatattgactaccttcatatatatgaatttatttgtatatctaccatttcatattttcttcaagattgctgactatcaaat---tgttctgtagTTTTCTGATGATTTTGCAATTTTGCTCTTTCATTATGATGGTCGGACTAGTGAATGGGATCAATTTGAGTGGTCAAGGAGTGCAATCCATGTCAGCGCAA

upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT2G28310.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------gtaagacatcctaaat---gcttaaaatatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
                 |  |   |   || |   | || | |||| |   |   |||| | |    |||||    |||     |||| | ||| |||||||| ||  | |||  |||| || | |||||||||||||| ||||||||||| |||||  ||||||||||||| || || ||  | ||| | |||   |
gttctgcaatatcagcatgtgttttagcaagtattgttttatatattctttgtg-gatacactcagattttttgttttct----tgtcatatcttcagTTTTCTGAAGATTTCCAAATTTTGCTCTTCCATTATGATGGCCGGACAACTGAATGGGACCAATTTGAGTGGTCGAAGAGCGCGATTCATATTAGTACAA

upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G08040.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------gtaagacatcctaaatgcttaaaatatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
            |    |  |     |   |||| |||  ||| | ||| |  ||  || ||||    ||||      || |  || |||||||| ||  | |||  |||  |||| |||||||||||||| || ||||||||||||||  | ||||||||||| ||||  ||  | ||| | ||||  |
gttctgcaacaatttctcccctcttgtttgtaaactatttgagtattgacac-ttaaagatttttgctttcat---catcattgcttcagTTTTCTGAAGATTTCCAAATATTGTTATTCCATTATGATGGCCGAACAACTGAGTGGGACCAGTTTGAGTGGTCTAAAAATGCAATACATATCAGTGCAA

upper sequence: GRMZM5G801369_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0004g02700.t01 (Vitis vinifera), 3'ss of exon 6
---------gtaagacatcctaaatgcttaaaatatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctcta---cagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
          | || | | | | |   || |  |||        ||||   || | | | || || |||| ||   | |  | |    |||||||| ||  | |||  |||| || | || || ||||||||||| |||| ||| |||||| ||||||||||||||||||  ||  | ||||| ||||  |
gtcatccacatgagccgttccataattttcatttatttattt--tgattgtttctggatattgagtttcagatgcttatgttttgtggcagTTTTCTGAGGATTTCCAAATTTTGCTTTTTCACTATGATGGTCGAACAAGTGAATGGGATCAATTTGAGTGGTCAAAAACTGCAATTCATGTTAGTGCAA

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|149075694|gb|EE164238.2|EE164238
EST:     TTACAGTGGGATACTCTCAAAAGGCAAACATTGATGCAGCGGTGAAAAAG                         TTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACT
genomic: TTACAGTGGGATACTCTCAAAAGGCAAACATTGATGCAGCGGTGAAAAAGgtaagacatc ... ttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACT
EST: gi|71301944|gb|DR787048.1|DR787048
EST:     TTACAGTGGGATACTCTCAAAAGGCAAACATTGATGCAGCGGTGAAAAAG                         TTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGGCGGACAACT
genomic: TTACAGTGGGATACTCTCAAAAGGCAAACATTGATGCAGCGGTGAAAAAGgtaagacatc ... ttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcgaggaatgatatattgtagtttttcagattcacatatgtcttctctacagTTTTCAGATAACTTCACAATTATGTTGTTCCATTATGATGGTCGGACAACTGAGTGGGATGAATTTGAGTGGTCAAAAAGGGCCGTCCATGTGAGTGTCA
                                         tgtcttctct  CT-rich tract
             atatattgtagttttt  TA-rich tract