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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacttctccattgccttattgtcttttagtagtagttccaaattgatgttgattttacagtatggttaggctaggtctatttcctgaaaacttagtttgttaattaactgcattattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG

Basic information

species Zea mays
transcript GRMZM2G181151_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 4
---gttacttctccattgcc-ttattgtcttttagtagtagttccaaattgatgttgattttacagtatggttaggctaggtctatt-tcctgaaaactta-gtttgttaattaactgcattattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
    | | || || |||    | | | ||||||     | | |  | ||||   |    ||| || |     || | ||| || ||| ||| ||  ||||| ||||  | | | |||   ||  |  |||||| |||||||| ||||| ||||||||||||||||| || || |||||||| ||||| |||
gttatcatttttctatttttatgaatatctttt-----ttgcttgagattgtattcagatttgcatttaccctatgatagttccattatccagagcacttacgttttattactgacttacttgattttcagGTCTTTGAAGGCACTTCAGGAATAGACAACAAATATACCACTGTGCAGTTCACAGGAGAG

upper sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 4
gttacttctccattgccttattgtcttttagtagtagttccaaattgatgttgattttacagtatggttaggctaggtctatttcctgaaaacttagtttgttaattaactgcattattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
     ||    ||||  || |   | | |      |       | | ||  | |      |   | || |  ||||    | ||| | |     |   || | | ||||  |  ||     |||||||||||||||||| |||||||| |||||||| |  ||||||||||| || ||||| |||
----gtttaggattgttttttgtccatgttacttcaaacattgaataatacttaaacacaaacttcgtgaatctag--tcacttcttcagtgacttacttatcacttaa--gggtt-----tcagGTTTTTGAAGGAACATCTGGAATTGACAACAAGTTTACAACCGTGCAATTCACAGGAGAG

upper sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 4
gttacttctccattgccttattgtctttta-gtagtagttccaaattgatgttgattttacagtatggttaggctaggtctatttcctgaaaacttagtttgttaattaactgcatta--ttcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
                  |  |  |||||| ||  || |    |  || | |  | || | |||||            | | | || |   |  |||| ||| | |||  |||  |||  |||  |||||||||||||| ||||||||||| ||||||||||||||||||||||| ||||| || |||
-----------------ctgctaccttttaagttttaatctttagatggtatatagttaatagtatat--------aatttctctctt---attttagcttgatcattttctgttttaatttccccagGTTTTTGAAGGCACTTCTGGAATTGACAACAAATACACAACCGTGCAATTTACTGGGGAG

upper sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 4
gttacttctccattgccttattgtcttttagtagtagttccaaattgatgttgattttacagtatggttaggctaggtctatttcctgaaaacttagtttgttaattaactgcattattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
                     ||| ||    ||||  |||     | || ||| || || || ||  ||    |   | | |||    |  |  || |||  | |     ||   | ||   |||||||||||||||||||||||||| ||||||||||||||||| || || |||||||| |||
--------------------gtgttttggcttagtccttcttg--tcatattg-ttatataggatttttttattt--tttgtttttcaattaaatactttactcagcttatgttgttttggccagGTTTTTGAAGGAACTTCTGGAATTGACAACAAATACACAACTGTTCAATTTACAGGGGAG

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|33102148|gb|CF062108.1|CF062108
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|211182799|gb|FL070450.1|FL070450
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|33102006|gb|CF061966.1|CF061966
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGAAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32908718|gb|CF013531.1|CF013531
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|33100953|gb|CF060913.1|CF060913
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|211182798|gb|FL070449.1|FL070449
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32945519|gb|CF050338.1|CF050338
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACANCCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32933270|gb|CF038082.1|CF038082
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTAAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|8367004|gb|BE049949.1|BE049949
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATAC
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATAC
EST: gi|32944897|gb|CF049716.1|CF049716
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|9953932|gb|BE640515.1|BE640515
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTACAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32846162|gb|CD985843.1|CD985843
EST:     CTCGCCGT-GTCAAGTCC-TGAAGTTGATGGAGAAAAAGCTGTTG-GCAG                         G-TTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32933397|gb|CF038209.1|CF038209
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|33100729|gb|CF060689.1|CF060689
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|31664290|gb|CD573015.1|CD573015
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32942779|gb|CF047598.1|CF047598
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|13389395|gb|BG462701.1|BG462701
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32931129|gb|CF035941.1|CF035941
EST:     CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCGGTTT
genomic: CTCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|211466593|gb|FL062044.1|FL062044
EST:     TCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAGCCTGTTGTGCAG                         GTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: TCGCCGTGGTCAAGTCCTTGAAGTTGATGGAGAAAAAG-CTGTTGTGCAGgttacttctc ... tattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggctaggtctatttcctgaaaacttagtttgttaattaactgcattattcatcagGTTTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
                                 aattaac  putative branch site (score: 2)
                  aaaacttagtttgtta  TA-rich tract