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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca...

Basic information

species Zea mays
transcript GRMZM2G164352_T04
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA07G10000.1 (Glycine max), 5'ss of exon 3
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttct-ttgtctggaaatattattccccagaccccacccgtgggagcttcca
 || ||  | |||||||| || ||||| || || || |||||||||||||| |||||||| || ||||| |||||||| ||||| |||||||| || |||||   |||  |    ||   || |  | |   |  |   ||  ||| |   | | |  ||   |   ||| |    |  || | |     ||||  |    
TCGGCTACTTGCTGTTGAGGGTTGTGCAGCTCTGGGAAAATTGTTGGAACCTCAAGATTGTGTGGCACATATTCTTCCTGTCATAGTCAATTTTTCTCAGgtttgttggccattagtaatacactgatactatatatgtagagattagagatatatcctccatatccattttgtggccaacactaatgaggggatgtctt-

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA02G10790.1 (Glycine max), 5'ss of exon 4
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttctttgtctggaaata-ttattccccagaccccacccgtgggagcttcca----
  |  |||||||||| || || |||||||| ||||| ||| || |||| |||||||||||| |  |||| || || || || |||||||| ||||| |||||  |||  |  || ||   |   ||||     |     |  || ||  ||| | ||  |    ||  |||   |     |   | |  | | |   | ||    
TAGATTGTTGGCTGTGGAGGGTTGTGCTGCTCTTGGGAAACTGCTGGAGCCACAAGATTGCATCACACATATACTACCGGTTATTGTCAACTTCTCGCAGgtgtatttttagca-gtgaaa--tatactgttagttatcatcaaattaatttttctgcttcattatgcttaaaactattgctttatc--tagtaatgttcagttt

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 4
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagta-atttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca
  |  |||||||||| || ||||||||||| ||||| ||  ||||||| ||||||||||| || ||||| || || || || ||||| || |||||||||||||||       |   |  |   ||| ||        |  || || |   |  |  |     |  |  |  |     ||           | |   |   
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactgtatatatatatatatatatatatatatatatatataatgagagacaagcttctgatatttggaataggaaaacagaacgataa-

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 4
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccat--gttggacccatacatcctgcagcaagta-atttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca
  |  |||||||||| || ||||||||||| ||||| ||  ||||||| ||||||||||| || ||||| || || || || ||||| || |||||||||||||||       |   | |  |   ||| ||       ||   | |  |   | ||   |   || || |        | | |  |    |   |   |   
CAGATTGTTGGCTGTGGAGGGCTGTGCTGCTCTTGGCAAGCTGTTGGAGCCACAAGATTGTGTTGCACATATACTCCCGGTTATTGTTAACTTCTCCCAGgtacatgataggaactggatatatatatatatatacacacacacacagatatatactagcttctgatatttggaataggaaaacagaatgataaaacagt---

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA09G31760.1 (Glycine max), 5'ss of exon 4
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca---------
 || ||  | |||||||| || ||||| || || || |||||||||||||| ||||||||||| ||||| |||||||| ||||| |||||||| || |||||   |||  |    ||   ||  |||||        |   || | |   |     | || ||  ||| ||   ||| | ||     ||||      | |         
TCGGCTACTTGCTGTTGAGGGTTGTGCAGCTCTGGGGAAATTGTTGGAACCTCAAGATTGCGTGGCACATATTCTTCCTGTCATAGTCAATTTTTCTCAGgtttgttggccattagtaatactgataca--------ctgatactatatatgtagagactagaggtat-atcttccatatccattttgtggccaacactaatgagagga

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA02G10790.2 (Glycine max), 5'ss of exon 4
-------------GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca
               |  |||||||||| || || |||||||| ||||| ||| || |||| |||||||||||| |  |||| || || || || |||||||| ||||| |||||  |||  |  || ||   |   ||||     |     |  || ||  ||| | ||  |      ||||| |   | ||     |              
ATCAAGACTCTGTTAGATTGTTGGCTGTGGAGGGTTGTGCTGCTCTTGGGAAACTGCTGGAGCCACAAGATTGCATCACACATATACTACCGgttattgtcaacttctcgcaggtgtatttttagca-gtgaaa--tatactgttagttatcatcaaattaatttttctgctt-----cattatgcttaaaactattgct-------------

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: AT3G25800.2 (Arabidopsis thaliana), 5'ss of exon 3
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatcctgcagcaagtaatttgctttctttgtctggaaatattattccccagaccccacccgtgggagcttcca
  |  | ||||| ||||| || |||||||| ||||| ||||||||||| || || ||||| ||   |||||||||||| || ||||| |||||||| |||||              ||    |  ||     |   ||   | || | |    |||    | ||   ||| ||     ||     |  || |        
TAGATTATTGGCCGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCTCAGGATTGTGTCCAACACATTCTTCCCGTGATTGTTAATTTCTCGCAGgtg------------attatgtctgtaggcttttatgctgatgatctaca---tttaaaagaaatgcttaatctttgtactttttcactgagcag-----

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 4
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcc-catgttggacccatacatcctgcag-caagtaatttgctttctttgtctgg-aaatat-tat----tccccagaccccacccgtgggagcttcca----
  |  | ||||||||||| || |||||||| ||||| ||||||||||| || || || || || |||||||||||||| || |||||||||||||| |||||| ||   |       |  ||   | | || ||   |   ||   | ||       |||  || | |||| |||    | |     |   |    |     |||  |    
TAGATTATTGGCTGTTGAGGGTTGTGCTGCTCTTGGGAAATTGTTGGAGCCCCAGGACTGTGTTGCACACATTCTTCCTGTGATTGTCAATTTCTCGCAGgtaaataaatgtgtgaatatgataaaaaaattctattgatgagctttatgggaaagctgtaaggcagatatgtatgagctgctttatcttgatttttttcgtctttgagcag

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: AT1G25490.1 (Arabidopsis thaliana), 5'ss of exon 4
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattg---ctcccatgttggacccatacatcctgcagcaagtaatttgct-ttctttgtctggaaatattattccccagaccccacccgtgggagcttcca-------------------------------
| | || |||||||||||||| ||||| || ||||| || ||||||||||| || ||||| || |||| |||| | || || ||||| |||||||| |||||  ||||    |    | ||  |  |||  ||  | |||  | |  | |||| |||  ||| |  || | | ||     | | |   |   |  ||  ||                                  
GAGACTATTGGCTGTTGAAGGGTGTGCAGCTCTTGGAAAGTTGTTGGAACCTCAGGATTGTGTTGCACGCATTTTACCTGTTATTGTTAATTTCTCTCAGgtgaattgagctttgtttttttcattcatggatttttcagttaattgtctgctgttccatgttt--aattttcatcggtaaaagcttgctgttctgatgtttttctatggtgtttgtattgatttctgagagcag

upper sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 4
lower sequence: Vv17s0000g03870.t01 (Vitis vinifera), 5'ss of exon 5
GCGTCTGTTGGCTGTTGAAGGCTGTGCTGCCCTTGGTAAATTGTTGGAACCACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgctcccatgttggacccatacatc-----ctgcagcaagtaatttgctttctt-tgtctggaaatattattc-cccagaccccacccgtgggagcttcca
  |  | ||||||||||| || ||||| || || || ||  |||||||||| |||||||| |||||||| |||||||| || ||||| |||||||| |||||||||  |    | ||||||    |  |||      |    | |   ||||||||  |  | | |  || | |  ||   |   | |  |   ||   ||      
TAGGTTATTGGCTGTTGAGGGTTGTGCAGCTCTCGGAAAGCTGTTGGAACCTCAAGATTGTGTAGCACATATTCTTCCCGTAATTGTGAATTTCTCTCAGgtacat--ccataaagttggatatgttaatcaacatttatttccatggatttgcttattcatattttaaagtttctttgatcttcatcttatgtgttcaagt-----

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|32831601|gb|CD971279.1|CD971279
EST:     CACAAGATTGCGTA-CACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|33091965|gb|CF051959.1|CF051959
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|21088918|gb|BQ401231.1|BQ401231
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATA
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATA
EST: gi|211520937|gb|FL382784.1|FL382784
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|32940030|gb|CF044849.1|CF044849
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|32830645|gb|CD970323.1|CD970323
EST:     CACAAGATTGCGTA-CNCACATTCTTCCAGTCATTGTCAATTTCTCC-AG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAANTCAAT-ATATGAGCT
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAA-TCAATTATATGAGCT
EST: gi|211403483|gb|FL417168.1|FL417168
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|32938569|gb|CF043388.1|CF043388
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|22935744|gb|BU572019.1|BU572019
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|31349427|gb|CD433784.1|CD433784
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|32847343|gb|CD987024.1|CD987024
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|31356642|gb|CD440999.1|CD440999
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|213188056|gb|FM186556.1|FM186556
EST:     CACAAGATTGCGTNNCACACATTCTTCCAGTCATTGTNNNTTTCTCCCAG                         GANNNATCATGGCGTGTTCGTTATAT
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATAT
EST: gi|32829962|gb|CD969640.1|CD969640
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|32851452|gb|CD991133.1|CD991133
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|211356091|gb|FL413289.1|FL413289
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTA
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTA
EST: gi|31355734|gb|CD440091.1|CD440091
EST:     TTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATCGTGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: TTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC
EST: gi|211150174|gb|FL390449.1|FL390449
EST:     CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAG                         GATAAATCATGGCGTGTTCGTTATATGGTCGCCAATCAATTATATGAGCTC
genomic: CACAAGATTGCGTAGCACACATTCTTCCAGTCATTGTCAATTTCTCCCAGgtacattgct ... ttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTC