Sequence
atgc intronic sequence ATGC exonic sequence...tattatctagatgctataatttttgttgatacaaatctactgtgatgatgatcatgaccatgcttggtaatttctttttgatttaaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g53600.1 (Oryza sativa), 3'ss of exon 10
-------tattatctagatgctataatttttgttgatacaaatctactgtgatgatgatcatgaccatgcttggtaatttctttttgatttaaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
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tagaaaacaccatatagacacta--atagtagtttgtggctgtc-acagcatttac--ttattataacact-gataattgctttgtggattat-cttcacaattaagGGCTGGGTGGCATTTCGCCAAGGAGTGGAATGTGGATTTCAAGGACGAACTAATAAATTGGTTGATGGTTGCTACTCCTTTTGGCAG
upper sequence: Vv14s0066g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G158562_T03 (Zea mays), 3'ss of exon 8
----------------------------------------------------------------------------------------------tattatctagatgctataatttttgttgatacaaatctactgtgatgatgatcatgaccatgcttggta----atttc---tttttgatttaaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
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gtaagataacctcttcctcccttagtttatttaatttacttctataattatgatgtgtttatgtgtattagatcattaagttattttttagctccttggtgaaagtgcatgacaagtagtagatacttgtgtgtttggctgatg-caacaattgtttttgttacaatatttggcgttgttgctggcatcttcaccatttagGGCTGGGTGGCTTTTCGTCAAGGAGTGGAATGCGGATTTCAAGGACGAACTAATAAATTGGTTGATGGTTGCTACTCCTTTTGGCAG
upper sequence: Vv14s0066g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G23780.1 (Glycine max), 3'ss of exon 10
-------tattatctagatgcta-taatttttgttgatacaaatctactgtgatgatgatcatgaccatgcttggtaatttctttttgattt-aaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
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gtaagagaattgttcctttcccactggcttccagttattcggatgaatttttaagttgttgacttgaagttatatgaatgatttaattatctgaggtgttgcatt--agGACTGGGTGGTATTCCGACAAGGTAAGGAATGTGGATTCCAGGGGAGAACAAATAAACTGGTGGATGGATGCTATTCCTTTTGGCAG
upper sequence: Vv14s0066g01310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G19740.1 (Glycine max), 3'ss of exon 10
-------tattatctagatgctataatttttgttgatacaaatctactgtgatgatgatcatgaccatgcttggtaatttcttt--ttgatttaaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
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gtaagagaattgttccttttctactggctta--cagttcataagaacttttaagtttctgacacttaagttatatgaacgatttaattatctgaggcattgcatt--agGAATGGGCGGTATTCCGGCAAGGTAAGGAATGTGGATTCCAGGGGAGAACAAATAAATTGGTGGATGGATGCTATTCCTTTTGGCAGMapped 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|71870690|gb|DT019745.1|DT019745EST: CAATGGTTCTGATCGGTGAAGTTAATTGTTTGGACTTGACTAGTTTAATT GATTGGGTGGTATTTCGACAAGGTGTCGAGGGTGGTTTCCAGGGCAGAACC
genomic: CAATGGTTCTGATCGGTGAAGTTAATCGTTTGGACTTGACTAGTTTAATTgtaagacaat ... tgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACC
EST:
gi|71865931|gb|DT014986.1|DT014986EST: CAATGGTTCTGATCGGTGAAGTTAATTGTTTGGACTTGACTAGTTTAATT GATTGGGTGGTATTTCGACAAGGTGTCGAGGGTGGTTTCCAGGGCAGAACC
genomic: CAATGGTTCTGATCGGTGAAGTTAATCGTTTGGACTTGACTAGTTTAATTgtaagacaat ... tgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgatcatgaccatgcttggtaatttctttttgatttaaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
ttttgat putative branch site (score: 4)
ttgtttt putative PPT
taatttctttttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattatctagatgctataatttttgttgatacaaatctactgtgatgatgatcatgaccatgcttggtaatttctttttgatttaaacattgttttgcagGATTGGGTGGTATTTCGACAAGGTGTTGAGGGTGGTTTCCAGGGCAGAACCAATAAATTGGTTGATGGTTGCTATTCCTTTTGGCAG
- - - - - - - - - - - - - - atacaaa
- - - - - - - - - - - - - - - - - - ctactgt
- - - - - - - - - - - - - - - - - - - - - - - - -gatcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgct