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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taactatgaattgttgttgtaccaaatggttatttcattattaaactgacaaaaatgccattttttagtatcaacttatctttgctttgaattagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG

Basic information

species Zea mays
transcript GRMZM2G381933_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G381933_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g15490.3 (Oryza sativa), 3'ss of exon 10
taactatgaattgttgttgtac--caaatggttatttcatta-ttaaactga------caaaaatgccattttttagtatcaacttatctttgctttgaattagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG
       ||| ||||||  |||   ||||||||  ||||| | ||  |||||      || |||||||||||  |  |||||||  || |||  ||||||||  | ||||||||||||||||| |||||||| |||||||||||||| || ||| |||||||||||||||| |||||||||
-------gaactgttgtcatacactaaatggttgcttcatgaatttgactgaacaaatcacaaatgccatttactgttatcaac--atgtttaatttgaattttcatagGCTCCTGATGAAGAGTTTGAAGAATACCTTAGTCAACTGATAGGAGACAATTACACTGGTGATCGAAATGAG

upper sequence: GRMZM2G381933_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA03G34140.1 (Glycine max), 3'ss of exon 10
---taactatgaattgttgttgtaccaaatggttatttcattat-taaactgacaaaaatgccattttttagtatcaacttatctttgctttgaattagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG
   |  | ||   |   |||| |  ||  |  || |  | || | | | ||  |   |||     | | ||  || |   | | ||   || |  ||   ||||||||||||||||||||||||||| || || || ||  | || ||  |  | |  ||||||||||||||||||
gcatctcaatttctctctgttatttcagctttttttcactttttctcatcttcctggaat----ctctatatcattattgtttgttgatttggttttgatgtagGCTCCTGATGAAGAATTTGAAGAATATCTCAGGCATATTATTGGTGATCAGTGTACTGGTGACCGAAATGAG

upper sequence: GRMZM2G381933_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
taactatgaattgttgttgtaccaaatggttatttcattat-taaactgacaaa---aatgccattttttagtatcaacttatct-ttgctttgaattagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG
 ||  |   |||          |||     |  ||   ||  ||  |  |  ||    ||||  |   |  || | |  |  ||  |||  || ||||    ||||| |||||||||||||||||||| || ||||| || || || ||  || ||| |||||||||||| ||||||
-aaaaagagattcaaaactagtcaagcttctgctttgctacataggcatatcaattggatgcactaactatgtttgatttggtcaattgtcttaaatt----tagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG

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|33285805|gb|CF075600.1|CF075600
EST:     ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|33097429|gb|CF057389.1|CF057389
EST:     ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|71767359|gb|DR965296.1|DR965296
EST:     AAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACTTTAGTCATCTCATGGGAAACAAT
genomic: AAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|33285569|gb|CF075364.1|CF075364
EST:     ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|71767360|gb|DR965297.1|DR965297
EST:     ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|211076372|gb|FL154532.1|FL154532
EST:     ATTCAGACGTTTCTTTGGCTGGTGTTGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|78087486|gb|DV515879.1|DV515879
EST:     ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|8516501|gb|BE123226.1|BE123226
EST:     ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
EST: gi|67023704|gb|CO452453.1|CO452453
EST:     ATTCAGACGTTTCTTTGGCTGGTGTTGCGAAAGCATTTGGAGTTCGTCTG                         GCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT
genomic: ATTCAGACGTTTCTTTGGCTGGTGTCGCGAAAGCATTTGGAGTTCGTCTGgtgcgtccaa ... attagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgacaaaaatgccattttttagtatcaacttatctttgctttgaattagcgtagGCTCCTGATGAAGAATTTGAAGATTACCTTAGTCAACTCATGGGAAACAATTACACTGGTGACCGAAATGAG
 aactgac  putative branch site (score: 2)
              attttttagtatcaa  TA-rich tract