Sequence
atgc intronic sequence ATGC exonic sequence...tgtatgtcattcaatttagtagaagcttggggttgttaatatcatgatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 3'ss of exon 12
---tgtatgtcattcaatttagtagaagcttggggttgttaatatcatgatgatgctgtt-caataattactaatgtaaataaattggtact--caatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
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gtgagtttccctttcaacgcacctacttatttattatttagttatcttgcttttcctattatcatgatttgtaactttgttttggttgaactttcaattt---tagGTCTTCATAGCTGTGTTGGTAGACAACTTTCTCTACCCTATATCTGCATTCAGGTCTCATTTTTCCCAATCAATCAATTGGTCTGGTATCAGGTACCACC
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 11
tgtatgtcattcaatttagta----gaagcttggggttgttaatatcatgatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
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gatatgattatgaatgtaatattaggaaactaaggatgtgaaatatca-aacaagcttgctattaagttggtaaagttag-aaactg--acttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 12
---tgtatgtcattcaatttagtagaagcttggggttgttaatatcatgat-gatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
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atttgtaaat-atttgagttaatatgatgtcaaggaaagtgaaatactagttgataaggtaagatttgatttatttttaatt--tttattttct-tttgaacagGTATTCATTGCAATGCTGGTGGGTAACTTTTTATACCCTATATCTGCAGTTCGTTCTCATTTTACTCAGTCTATTAATTGGTCTGGCATTATATACCATT
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 12
tgtatgtcattcaatttagta----gaagcttggggttgttaatatca--tgatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
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--tatgattatgaatgtaatactatgaagctaagggtgtgaaatatcaaacaagcttgctattaagttggtaaaaagttaga--aactg--acttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCCGTATCGGCATTCCGCTCTCATTTTTCTCAATCTATCAACTGGTCTGGTATTCGGTACTATT
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 12
---tgtatgtcattcaatttagtagaagcttggggttgttaatatcatgatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
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atttgtgaatctttgagttaatatgatgtcacaggaagcgaaatactagttgataaggtaagatt-tgatttatttt--taagttttattttcttttgaacagGTATTCGTTGCAATGCTGGTGGGCAACTTTTTATACCCTATATCTGCAATTCGTTCTCATTTTACTCAGTCTATCAATTGGTCTGGCATTATATACCATTMapped 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|294965468|gb|GW839039.1|GW839039EST: TATCTCCTGAGGCAAGCCCACTGTCACTTGCGTCGTATAACTGGGGCCTT GTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTC
genomic: TATCTCCTGAGGCAAGCCCACTGTCACTTGCGTCGTATAACTGGGGCCTTgtaagtatca ... atttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
tactaat putative branch site (score: 1)
tgttcaataattacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtatgtcattcaatttagtagaagcttggggttgttaatatcatgatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACT
-gtatgtc
- - - - - - - - - - - - - - ggggttg
- - - - - - - - - - - - - - - - - - - - - catgatg
- - - - - - - - - - - - - - - - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa