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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgcaatgtggggctatggaaagtatcatgctttctagaccagtacagtatcttaaccaaagatattctcagttctcgtttcttctcaacaaag...

Basic information

species Zea mays
transcript GRMZM2G121456_T03
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g19510.1 (Oryza sativa), 5'ss of exon 8
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgcaatgtggggctatggaaagtatcatgctttctagaccagtacagtatct--taaccaaagatattctcagttctcgtttcttctcaacaaag
| ||||||||||||||||| |||||||| |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||||||  | ||| ||     | ||     ||||| | |    |   ||   || || |   |||  ||  ||||  |   ||||| | |   |   | |  |
GGAAGCGATACAGCTTACCTAACTCAAGAATAATGATCCATCAACCTCTCGGAGGAGCCCAAGGACAAGAGACTGATCTTGAGATCCAGgtaaatccacaaagttaaattgtgtttt-tatcaagatcaggacgacatctcaatagcaaataattaaccatatcattgtttctc-tcttgccggtatatgg

upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA10G01550.2 (Glycine max), 5'ss of exon 8
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgta-aactcgcaatgtggggctatggaaagtatcatgctttctagaccagtacagtatcttaaccaaagatattctcagttctcgtttcttctcaacaaag-
||||| |||||||||| ||||| |||||||||||||| |||||||| ||||| || || ||||||  | | |||||  | || |||||||||     | || | |    || |   |  | | ||    |  |   ||        ||| ||   |  |  || |   ||             |  |||| 
GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAGgtatgggcctcagtttcctccttt--tattttttattggataaacctcatgtttccttctcaatttataaatttatatatttctaccatagaaaattaaagc

upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA02G01510.2 (Glycine max), 5'ss of exon 8
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgta-aactcgcaatgtggggctatggaaagtatcatgctttctagaccagtacagtatcttaaccaaagatattctcagttctcgtttcttctcaacaaag----
||||| |||||||||| ||||| |||||||||||||| |||||||| ||||| || || ||||||  | | |||||  | || ||||||| |     | || | |    || |      | |  |  |   || | |   |   |  ||| |  |||  |||  |    | |  ||   ||  |  |||     
GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAGgcatgggcctcagtttcctcctttt----attttttattggataaatct-catgttcccttcataaaatttataattttatttacttgtatcatagaaaattaaa

upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 8
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 5'ss of exon 8
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaa-----ctcgca-----atgtggggctatggaaagtatcatgctttctagaccagtacagtatcttaaccaaagatattctcagttctcgtttcttctcaacaaag----------------------
||||  |||||||  |||||||||||||||||||||||||||| || ||||| || || |||||     | || ||  |||| |||||||| |      |||||      || | ||  | |        |||| |||  ||      |  ||   ||  |   |    | | |||| |    ||    |  ||| |                        
GAAAAAGATACAGTCTACCAAACTCAAGGATAATGATCCATCAGCCGCTTGGTGGAGCTCAAGGTGGCCAAACCGACATTGACATTCAGgtcattcatcctcgcctttatatttcggtttttaatcccagtcat-cttcttaagttcttggagcgactagattgatttgaatatcagatgattttgaaacctaaccacacaagttcatggtctgaaaccag

upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 8
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 5'ss of exon 8
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgcaatgtggggctatggaaagtatcatgctttctagaccagtaca-------gtatcttaaccaaagatattctca-gttctcgtttcttctcaacaaag
||||  |||| ||||| |||||||||||||| ||||||||||| ||||| || || || |||||   | | |||||  | || ||||||||    |     | |   ||| |  |    | |||   ||   | | | ||||       ||| |||| | ||          |  || |  | ||||          
GAAAAAGATATAGCTTGCCAAACTCAAGGATCATGATCCATCAGCCTCTCGGTGGAGCTCAAGGTGGGCAAACTGACATAGATATTCAGgtgtgttgtttctctcttgct-ttcattccaccatttgtttctgtcgattacatgttgatgtaccttatctaatacagcagatacattatgatgtctttgt-------

upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 8
lower sequence: PP1S49_191V6.1 (Physcomitrella patens), 5'ss of exon 8
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgcaatgtggggctatggaaagtatcatgctttctagaccagtacagtatcttaaccaaagatattctcagttctcgtttcttctcaacaaag-------------------------------------
| || ||||||||  ||||||| ||  | || ||||| ||||||||||| ||||| || ||||||||| |||||||| |||| ||||||||  ||      | |     | | |    |||  | |   ||| | |  | |    ||  |  ||||    |||  | || |   || |         ||                                     
GTAAACGATACAGTCTACCAAATTCGCGAATTATGATTCATCAACCTCTGGGAGGTGCTCAAGGACAGCAGACTGATATTGAAATTCAGgtgcacatctcctttatttatttagcttttatt-ttcaaacta-atcgctccgagctcgcacacaaattctttcagaattttgacttttaaatgctgcagactgctcttgtaacggatcctcatgtgacgactgcag

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|19769319|gb|BQ034040.1|BQ034040
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|110519563|gb|EE023896.1|EE023896
EST:     TCCACCCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCCGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: TCAACC-TCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|74237088|gb|DT645002.1|DT645002
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|78092088|gb|DV520462.1|DV520462
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|148939986|gb|EC884717.2|EC884717
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|32942454|gb|CF047273.1|CF047273
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|20208074|gb|BQ134163.1|BQ134163
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|26456147|gb|CA827730.1|CA827730
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|149088221|gb|EE177331.2|EE177331
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|101399114|gb|EB821430.1|EB821430
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GC-AATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|78111070|gb|DV529467.1|DV529467
EST:     ATCAACCTCTTGGAGGGGCCCATGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAGGGCGAACTTAAATGGATACCTTG
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTG
EST: gi|78544613|gb|DV622111.1|DV622111
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGTTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|76919121|gb|DV167599.1|DV167599
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|71427481|gb|DR808531.1|DR808531
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|71445134|gb|DR826184.1|DR826184
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|74245787|gb|DT653701.1|DT653701
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|148939985|gb|EC884716.2|EC884716
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCCCAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|78090189|gb|DV518563.1|DV518563
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|148938546|gb|EC882867.2|EC882867
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|58029811|gb|CX725238.1|CX725238
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|101400189|gb|EB821914.1|EB821914
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|93282145|gb|EB674409.1|EB674409
EST:     ATCAACCTCTTGGAGGGGCCCA-GGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|76012850|gb|DT940020.1|DT940020
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|211478510|gb|FL023986.1|FL023986
EST:     CAACCTCTTGGAGGGGCCCAAGGACAGGNAGACTNGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: CAACCTCTTGGAGGGGCCCAAGGACAGG-AGACT-GATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|9254470|gb|BE344938.1|BE344938
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|148934818|gb|EC878864.2|EC878864
EST:     ATCA-CCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCA-TGAGATGC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGC
EST: gi|113702266|gb|EE679770.1|EE679770
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|101399344|gb|EB821545.1|EB821545
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCACAAGGCGATCTTAAATGGATACCTTGCATAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCACAAGGCGAACTTAAATGGATACCTTGCATAC
EST: gi|71307773|gb|DR790105.1|DR790105
EST:     ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG                         GCCAATGAGATGCTGCACCAC
genomic: ATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgc ... ttttattcagGCCAATGAGATGCTGCACCAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAGgtaaactcgcaatgtggggctatggaaagtatcatgctttctagaccagtacagtatcttaaccaaagatattctcagttctcgtttcttctcaacaaag

- - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA