Sequence
atgc intronic sequence ATGC exonic sequence...ttttttttttttgataaatgatagttgttgcttgagaatcaacattgtttacttacatttcattaaaccttaagctcaatatacattttcttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g08200.1 (Oryza sativa), 3'ss of exon 5
ttttttttttttgataaatgatagttgttgcttgagaatcaacattgtttacttacatttcattaaaccttaag-----ctcaatatacattttcttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
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----tattctgtagcatctcat-gttcatactgtgttttcccctttatatgcttgtctatctgtctagtttagaggctatttgatgtgacccttttgttgtgcagACCGAGATGACTACTGCTGAAAGAGAGCTTGATCACAACACAAATTATGACTGGAATAGAATACAAGAAAGTGGCAAAGATGCCGAACTTTTATACGGCC
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G107696_T02 (Zea mays), 3'ss of exon 9
ttttttttttttgataaatgatagttgttgcttgagaatcaacattgtttacttacatttcattaaac-cttaagctcaatatacattttcttgtt--tccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
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tatgttacagctgatgcataatacagtttttttcctgcttgacatg---tacatagaggcaattttatgcttggccacattgtttataaatttgttcttgcagACTGAGATGACTACTGCTGAGAGGGAACTTGATGCTAACACAAATTATGACTGGAATAGAATACAAGAAAGTGGAAAAGACGCTGAGCTTCTGTTTGGAC
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G39770.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------------ttttttttttttgataaat-gatagttgttgcttgagaatcaac-----attgttt--acttacatttcattaaaccttaagc---tcaatata---cattttcttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
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gttaattatttatcttgaaatgatacttttcacacacacaatcaaactatattaattatttgtcttgagaataaacttttgtcttgttactccaacaggcatggcataagagcgtacttgcaattaattaaatttaaatatcacttgactcttaatattttaaaatggtccactttcttatattcagACTGAAATGACAACTGCTGAAAGAGAACTTGATCACAATACAAATTTTGATTGGAATCGAATCCAAGAAAGTGGACAAGAAGTAGATCCAATTTTTGGAC
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G22240.1 (Glycine max), 3'ss of exon 5
------------------------------------------------------------------------ttttttttttttgataaat-gatagttgttgcttgagaa-----tcaacattgttta--cttacatttcattaaaccttaagctcaatata------cattttcttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
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gttaattatttatcttgaaatgatacttttcacgcacaataaaaaatatattaattattaatcttgagtataaacttttgtcttgttactccaacaggcatggcgtaagagtgtacttaaaattaattaaatttaaatatcacttgactcttaatattttaaactggtccaatttcttatattcagACTGAAATGACAACTGCTGAAAGAGAACTTGATCAAAATACGAATTTTGATTGGAATCGAATCCAAGAAAGTGGACAAGAAGTAGATCCAATTTTTGGAC
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G20630.1 (Arabidopsis thaliana), 3'ss of exon 5
ttttttttttttgataaatgatagttgttgcttgagaatcaacattgtttacttacatttcattaaaccttaagctcaatatacattttct----tgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
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---tttgtactgccttgatcatcatctttgctaaagatatcccat-gctggttttaatctgaataatgttaactttcttgaaatgtttgctacaattttcacagACTGAAATGACAACTGCTGAAAGAGAACTTGATCAAAATACAAATTTTGATTGGAACCGTATACAAGAGAGTGGAAAAGAATTGGTGCCAGTTTTTGGAC
upper sequence: Vv19s0014g03920.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S495_6V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------------------------ttttttttttttgataaatgatag---ttgttgcttgagaatca-acattg--tttacttacatttcattaa-accttaagctcaatatac---attttcttgtt---tccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
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gtatgcatcacgatgcttaaccatctgaaatgtttgttaacttgacgggataaaggtcaagtctacatccattatctttggttgtgtggttccaagcttctttgtttagggattttacgtttgttttattttacttttgttactgcatcatactgatgctactgaactggattgctcgttgcagACAGAAATGACAACTGCTGAGCGGGAGTTAGATCAGAATACCAATTTTGACTGGAATAGAATTCAAGAGAAGGGAAAGGAACTAGAGCCGCTCTTTGGGCMapped 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|161719286|gb|FC068262.1|FC068262EST: TAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAG ACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGAT
genomic: TAGCACAGCATTTGGCATTTTTTGGTATTGATTTTTCATCATTACAGAAGgttagtcttt ... ttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttacttacatttcattaaaccttaagctcaatatacattttcttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
tacttac putative branch site (score: 1)
cattttcttgtttcc putative PPT
ttacatttcattaaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttttttttgataaatgatagttgttgcttgagaatcaacattgtttacttacatttcattaaaccttaagctcaatatacattttcttgtttccagACTGAAATGACTACTGCTGAAAGGGAACTTGACCAGAATACCAATTTTGATTGGAACCGAATTCAAGAAAGTGGACAAGAAGTTGAACCACTATTTGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - tgcttga
- - - - - - - - - - - - - - - - - -gaatcaa