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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatccttcatgtgatgaacaaccaatataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA

Basic information

species Zea mays
transcript GRMZM2G127050_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g04050.1 (Oryza sativa), 3'ss of exon 3
-----tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatccttcatgtgatgaacaaccaatataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
      ||||   ||||    | |  ||||   |  | |||  |||| || || |  ||| ||   | || || | |   |     ||| || ||   | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||||||||||||||| |||||||
aaatcgctttcccatgatgttgttcacatgaacctctccttcacatggttatccagatgttat--ccgtttatctaa---atcgttaatgtatttatatttgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGCAAAAGTTATAGCACAAACCTTGCATATACACCTCCAGAGTATTTGA

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 3
tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatccttcatgtgatgaacaaccaa--tataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
    | | || |      |  || |    |||  ||| | |||||   | |         || ||   |||   |||||  |   |  |||   |   | || |||||||||||||||| ||||| |||||| ||||||| ||||| |||||||| ||||| |||||||||||  | || |||||||| || |||||| | |
---gtattattattttcttctcaagagttatttattt-cgtgtttaagagatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 3
----tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatc-cttcatgtgatgaacaaccaatataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
       | |  ||      | ||| || | | || |   |   ||     |||   ||| ||||  |  || ||| | |   |    |    |   ||  ||||||||||||||| || ||||| ||||||||  |||||||||| ||||| ||||| ||||| || |||||||| ||||| ||||||||||| || ||| | |
taaccagtagacattttcctggttgtat-tgaaataaaactatctggagaccaattagtagtaatagcaacaagtggtaacttattggt----tggttttagcagAATGGTGATCCACGGCTTTCTTGCTTTGGTATGATGAAAAATAGCAGAGATGGAAAAAGTTACAGCACAAATCTTGCCTATACACCTCCTGAGTATCTAA

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 3
tctttgtgatgacaacgattgc----atgttaca--ttactttgca-tgtttctcaaactgtaataatccttcatgtgatgaacaaccaatataatttc-ttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
    | | |||    |  ||      || ||| |  ||| | |  | ||||   || | | | ||  |     | ||||| | | |  | | | |||    | || || ||||||| || || |||||||| |||||| |||||||||| || || ||||||||||| ||||||||||| ||||| || |||||||| |||||| | |
gtgctataatggattcttttctcaaaattttaaagtttattatctactgttatacataatttgatgtttagctaggtgataatctaatattttgattggactttgtagGATGGTGACCCACGGCTTTCATGTTTTGGCTTGATGAAAAATAGTAGAGATGGGAAAAGTTATAGCACAAATCTTGCCTACACACCTCCGGAATATCTAA

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ20301 (Selaginella moellendorffii), 3'ss of exon 3
tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatccttcatgtgatgaacaaccaatataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
                                        || || | || |  |     ||| || |    |   ||   | |  |  |  || ||||| | |||||||| || || || || || || |||||||| |||||| | || || || ||||||||||| ||| | |||||||||||||| ||||| ||| 
---------------------------------------gtgctttttaatccttttcgttccctcctagtgtatgcattaactgcagctg-ttttgcagGACGGTGATCCGCGCCTCTCTTGTTTCGGTCTGATGAAGAACAGCCGAGACGGCAAGAGCTATAGCACGAACTTGGCATATACACCTCCTGAATACTTGC

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|149009662|gb|EE041601.2|EE041601
EST:     GAAGGCCTTTGTATCATGACCTAAATGCATATAGGGTCCTCTTTGATGAG                         AATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGAT
genomic: GAAGGCCTTTGTATCATGACCTAAATGCATATAGGGTCCTCTTTGATGAGgtaactgttc ... tcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaaactgtaataatccttcatgtgatgaacaaccaatataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA
                                           tttcttctgc  CT-rich tract
                                    aatataatttcttct  TA-rich tract