Sequence
atgc intronic sequence ATGC exonic sequence...attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 5
-----attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
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aacaagaatttcaaccaaaaataaagagcgtgttcagaaaaatttgttgataacatatcctaaaccaattcccata-tctaactttcca----tgttcaaacaagGAACTCGGTGGATCTCTAGGCAGAGATGCAGCTACAGGACGAGGAGTCCTCTTTGCAACTGAGGCTTTGCTTAAGGAGCATGGGATGAGTCTATCCGGAC
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 4
---attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
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gtgagtaattgtttgtttctgtcatttcatttcaatggccattgaagtgaaatcaaatcatatgc-ttcatacactattgcccctcatgttttttcaaactagGATCTTGGTGGATCTCTAGGTAGAGACGCGGCTACAGGACGGGGAGTCCTCTTTGCAACAGAGGCTTTGCTTAATGAGTATGGGAAGAGTGTATCTGGAC
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G26940.1 (Glycine max), 3'ss of exon 4
-----attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
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aacaagaatttcaaccaaaaataaaaagtgtgttcagaaaattttgctgataacatcccctaaaccaattcccata-tctaacttt--tca--tgttcaaacaagGAACTCGGTGGATCTCTAGGCAGAGATGCAGCTACTGGACGAGGAGTCCTCTTTGCAACGGAGGCTTTGCTTAAGGAGCATGGGATGAGTGTATCCGGAC
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 5
attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtga---taaattcttt-aaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
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--------gtaagtaat-tgtttgtttcatttcaatggccattgaag---tgaaatcaaatcatatgcttaatatatcattgcccttatgttttttcaaactagGATCTTGGTGGATCTCTCGGTAGAGACGCGGCTACAGGACGAGGAGTCCTCTTTGCAACAGAGGCTTTGCTTAATGAGTATGGGAAGAGTGTATCTGGAC
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G16320.1 (Glycine max), 3'ss of exon 6
---attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
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gtgagtaattgtttgtttctgccatttcatttcaatggccattgaagtgaaatcaaatcatatgt-ttcatacactattgcccttcatgttttttcaaactagGATCTTGGTGGATCTCTAGGTAGAGACGTGGCTACGGGATGGGGAGTCCTCTTTGCAACAGAGGCTTTGCTTAATGAGTATGGAAAGAGTGTATCTGGAC
upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 4
---attctttggcata-tcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaat--tctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
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gtaagtgaccgttctaatcgcggttttaggttggttcggtttatgtgttcaact---aatctaaaactgaatgagatttgatttttgaggatgatgttttgagcagGATCTTGGTGGATCTCTTGGGAGAGATGCTGCTACAGGAAGAGGAGTGTTGTTTGCAACAGAAGCTTTACTCAACGAACATGGAAAGACCATATCTGGACMapped 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|33404746|gb|CF210373.1|CF210373EST: ACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATT GATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTC
genomic: ACTCGAAATTTCATGGCTACTCACCTGCTGTGGTGACTGGAAAGCCTATTgtgagtatat ... tttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
atctgac putative branch site (score: 3)
ttcttt putative PPT
agtgataaattcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctttggcatatcctatattgaaatcaccatgatgtatattgctgccttggattctgtttgtttctataatctgacagtgataaattctttaaattagGATCTCGGTGGATCTCTGGGCAGAGATGCAGCTACAGGAAGGGGAGTACTCTTTGCAACAGAGGCCCTTCTTCATGAACATGGGAAGAGCATTGCCGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - -catatcc
- - - - - - - - - - - gaaatca
- - - - - - - - - - - - - - -ccatgat
- - - - - - - - - - - - - - - - - - - - - -gctgcct