Sequence
atgc intronic sequence ATGC exonic sequence...tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 3'ss of exon 5
tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgcc-----ttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
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----ttccacaatttcaatcagtcttttcttcacaactt-tcttacttctctgcttaacaagtaaagatctgccaaatattcatttatgacaattcatgatgtagATTGGCTTCAACACCAGCAATGTTCAACAGTACACTTACAGAAGATGAGATAAATCATTGCCCAGTTGATGGAGCCATAATGATAACAG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G173674_T01 (Zea mays), 3'ss of exon 2
-------------tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACA-CCAGCAATGTTTAATAGCACACTTACTGAAGGCGA------ACAGTTT---TTGTGTCCTGCAGATGGA---TCCATTATGATAACCG---------
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gtcactaaagctatagctgcagcttttgccgcatggctattaatcaag--aaaccagatgacttgagacgtttaagaatct-ctgttggacatgat-tcatgaatttctgcacataaattgcagAATCCAGTCACTCATGGAATCACTGCTGCTAGACACGATATCCTACAATTTGGATTGGCTTCAACACCTGCAATGTTCAATAGTACACTTACAGAAGATG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G35490.1 (Glycine max), 3'ss of exon 5
--------tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
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gttttcagcatatgtaat-ttcatcatggatac--ttagtattattaccctaacggttttcactgcctaatgtattaatact---gttg-tgttgattcatttct-agATTAGCATCAACACCAGCCATGTTCAATAGCACACTCACGAAGAATGAAGCATTTTTGTGTCCTGCTGATGGATCTATTATGATAACAG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 4
-------tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
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taatttcattagacaaatttcatcatggatac--ttagtattattaccctaacggttttcactacctaatgtattaatact---gttg-tgttgattcatttct-agATTAGCATCAACACCAGCCATGTTCAATAGCACACTCACAAAGAATGAAGCATTTTTGTGTCCTGCTGATGGATCTATTATGATAACAG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 5
------tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
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tgctgcaaggtcatataattgtttgaatcacatttcccatataacctattgaagcacatctcttgaaa------attggtttatgtttttttttttttttttgcagATTAGCATCAACACCAGCAATGTTTAATAGCACATTGACTGAAGATGAGTCATTCTTGTGCCCAGCTGATGGGGCTATTATGATAACAGMapped 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|161721838|gb|FC071151.1|FC071151EST: GCTGTTTCTCTAGGAATTGCTAGTGCTGGCCTGGAAGTTGTTCAATATGG ATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACA
genomic: GCTGTTTCTCTAGGAATTGCTAGTGCTGGCCTGGAAGTTGTTCAATATGGgtgagtggtg ... cttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
gattgat putative branch site (score: 4)
tatcatttcttttttc CT-rich tract
atatcatttctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatactatgttttccatagataccatcatcaagggaaattttgttgttttttttgtctgattttttactgccttgattgatatcatttcttttttcagATTAGCTTCAACACCAGCAATGTTTAATAGCACACTTACTGAAGGCGAACAGTTTTTGTGTCCTGCAGATGGATCCATTATGATAACCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - -catcatc
- - - - - - - - - - - - - - - - -agggaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgcct