Sequence
atgc intronic sequence ATGC exonic sequence...catatatttgataattggatttctgaaggtttatttgagctgctttcttgaatttctttactgctttggagcatcacaaactatctttgaacttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G15480.1 (Glycine max), 3'ss of exon 7
catatatttgataattggatttctgaaggtttatttgag-ctgctttcttgaatttcttta-ctgctttggagcatcacaaactatctttgaacttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
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ctaattatttttggtt--acctctgtttatttgcagaattctacttagttaaagttgttcaattgacttcaatatttatttcttaccatattgtttgtgcagGTGGTAATGCAGATTATGCTATGGATATGCACCAGAAAGAACAACTTCATGACAATACTGTGCCAATGATGCAATCTCAGCATTTCTCT
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G07970.2 (Glycine max), 3'ss of exon 7
catatatttgataatt--ggatttctgaaggtttatttgag-ctgctttcttgaa-tttctttactgctttggagcatcacaaactatctttgaacttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
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----gaaatgacaactgtggttttttaattatttacagaattctacttagtcaaagttgctcagttgacttaaacatttgtttcttaccaaattatttgtgcagGTGGTAATGCAGATTATGCTATGGATATGCACCAGAAAGAACAACTTCATGACAATGCTGTGCCAATGATGCAATCTCAGCATTTCTCT
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G04780.1 (Glycine max), 3'ss of exon 8
catatatttgataattggatttctgaaggtttatttgagctgctttcttgaatttctttactgctttggagcatcacaaact-atctttgaacttgtgca--gGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
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gttaactttgttgtttgttcatggaactgagaactctaattgagtg---gaggttagccacttggcttcagcattttttttttaccatagaatttgtacacagGTGGTAATTCAGATTTTGCTATGGATATGTACCAGAAAGAACAACTTCATGATAATACTGTGTCAATGATGCAATCTCAACATTTCTCC
upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G40650.1 (Glycine max), 3'ss of exon 7
catatatttgataattggatttctgaaggtttatttgagctgctttcttgaatttctttactgctttggagcatcacaaactatctttgaacttgtgca--gGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
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gttaacttggatgtttgttcatgtaactgataactctaattgagtgg--aggttagccagttggcttcagcatttgtttttgaccatagaatttgtacacagGTGGTAATTCAGATTTTGCTATGGATATGTACCAGAAAGAACAACTTCATGATAATACCATGTCAATGATGCAATCTCAACATTTCTCCMapped 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|30305309|gb|CB982103.1|CB982103EST: AGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAAAG GTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATG
genomic: AGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAAAGgtgcttgttc ... acttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATG
EST:
gi|30305245|gb|CB982039.1|CB982039EST: AGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAAAG GTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATG
genomic: AGAGTTCAGCATCCAAAATGAGGATTTTCCAGCTTTACCGGGATTTAAAGgtgcttgttc ... acttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgaatttctttactgctttggagcatcacaaactatctttgaacttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
aatttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catatatttgataattggatttctgaaggtttatttgagctgctttcttgaatttctttactgctttggagcatcacaaactatctttgaacttgtgcagGTGGTAATGCTGATTATGCTATGGATTTGCACCAGAAAGAACAATTTCATGACAATACTGTATCTATGATGCAATCTCAGCACTTCTCT
- - - - - - - - - - - ctgaagg
- - - - - - - - - - - - - - - - - - - - tgctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaaac