Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtgagtggagtaattcaaagaacagacaagcatgtttgctctctttgattccagattgaaacctttcccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 3'ss of exon 5
ttttgtgagtggagtaattcaaagaacag-acaagcatgtttgctctctttgattcc---agattgaaacctttcccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
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-tttcagacgagtctatatcactacatgttgcatacttgtttaaattttcatgctttgtgagattaaaccactacagtttatcatgttca---tttttttacagGTAATGAATCTTATTGGAGATGTTAGAGGAAAAGTGGCTGTTATGATGGATGATATGATTGATACAGCTG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G038791_T01 (Zea mays), 3'ss of exon 5
ttttgtgagtggagtaattcaaagaacagacaagcatgtttgct-ctctttgattccagattgaaacctttcccttcatgtacttcaatgt-tgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
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--acagctttagctgaatacaaaccatctgcagctatgctgaatacatgtttatcttaattttcaggctgcatgttcatcttgtcatgtgcatttattacagGTGATGAATCTTATTGGAGACGTGAGAGGAAAAGTGGCTGTTATGATGGATGATATGATCGACACAGCAG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 5
ttttgtgagtggagtaattcaaagaacagacaagcatgtttgctctctttgattccagattgaaaccttt-----cccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
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-----tgaccaatgttgttcccttaaaactgatgataaatcatatcttatagttctaaattaaagaatctataggctttgtaattaggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 5
ttttgtgagtggagtaattcaaagaacagacaagcatgtttgctctctttgattccagattgaaacctttcc----cttcatg--tacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
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----accaatgttgttcccttaa-aaccgatga-taaatcatatcttaatagttctaaattaaagcaccttataggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G44530.2 (Arabidopsis thaliana), 3'ss of exon 5
ttttgtgagtggagtaattcaaagaacagacaagcatgtttgctctctttgattccagattgaaacctttcccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
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------------------gtagaaaaacctttggaaaatacattttaaccaagtctggattttgacatttaacaacccgt--ttca---------tgtagGTGATGAACTTAATTGGGGATGTTAAAGGGAAAGTAGCCATAATGGTGGATGACATGATTGACACAGCAG
upper sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S152_123V6.1 (Physcomitrella patens), 3'ss of exon 5
---ttttgtgagtgga-gtaattcaaagaacagac-aagcatgtttgctctctttgattccagattgaaacctttcccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
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cgagataatacgctgacatatctttgaggatagatgaaactggaatgaactcagttgacatggac--gactattcgcagccctgagtatggatgatgt---acagGTCATGAATTTGATTGGAGACGTCAAAGGAAAAGTGGCTGTCATGGTGGACGACATGATAGACACTGCCGMapped 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|71874379|gb|DT023434.1|DT023434EST: CACCTCTAGCCATTGTGGATAAAAGGCGCCATGGGCACAATGTTGCAGAG GTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGAT
genomic: CACCTCTAGCCATTGTGGATAAAAGGCGCCATGGGCACAATGTTGCAGAGgtaacacata ... tgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGAT
EST:
gi|71874060|gb|DT023115.1|DT023115EST: CACCTCTAGCCATTGTGGATAAAAGGCGCCATGGGCACAATGTTGCAGAG GTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGAT
genomic: CACCTCTAGCCATTGTGGATAAAAGGCGCCATGGGCACAATGTTGCAGAGgtaacacata ... tgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgattccagattgaaacctttcccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
ctttgat putative branch site (score: 5)
ttgtctc putative PPT
attgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtgagtggagtaattcaaagaacagacaagcatgtttgctctctttgattccagattgaaacctttcccttcatgtacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - -tgagtgg
- - - - - - - - - -caaagaa
- - - - - - - - - - - - - - -acaagca
- - - - - - - - - - - - - - - - - - - - tgctctc
- - - - - - - - - - - - - - - - - - - - - - - - -tgattcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gattgaaa