Sequence
atgc intronic sequence ATGC exonic sequence...acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g41360.1 (Oryza sativa), 3'ss of exon 1
acaagattagtgtcattatta--tgaaacttgacattt--ttattgattttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
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---gtaatgatgtccattttagctgaatccctggatctaattgccgatatct-actatgtttggtattaccattttcttacagttg---ttaatgtgacttcagGCTATTGCCAACTTATCGGTGAATGCCAAGGTTGCAAAGGCAGTTGCAGACGAGGGAGGTATCACAATACTAACCAATTTGGCCAGGTCAATGAATCGGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G079031_T03 (Zea mays), 3'ss of exon 1
acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaag-ttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
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-----------gtaataa--attgttcctctcttcccttcgtatttagtgttcttgcttgcatttaccatcttctcacattagttaatgtcac-catgcagGCTATTGCCAACTTGTCAGTGAATACCAAGGTTGCCAAGGCAGTTGCAGATGAAGGCGGCATTACAATACTCATTAATTTAGCCAAGTCGATGAATAGGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G028796_T01 (Zea mays), 3'ss of exon 1
acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
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--gtaattagttgtttctctctg---cctgttattttttagtgttcttgcttgcattt------accatcttctcacattagttaatgccac-catgaagGCTATTGCCAACTTGTCAGTGAATACCAAGGTTGCCAAGGCAGTTGCAGATGAAGGCGGCATTACAATACTCACTGATTTAGCCAAGTCGATGAATAGGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 2
acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaagttgtggaaaccaattta-atttgttaaaatctgttgca--tatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
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---tatttgatgccttttacatgcatatttcactagaaatcttagctagcaaaaatctgacacaatcaatgtgtatttgtcccaactttctaaatttgtgtagGCCATTGCAAATTTGTCTGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G48840.1 (Glycine max), 3'ss of exon 1
acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
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ttgatgccttttacatgcatatttcactagaaacccgagctaagaaaaatctgacacaatcaatgtgtatttgtcctccaaactttctaaatttgtgtagGCCATTGCAAATTTGTCCGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTGAGATTCTTGCTGGGTTGGCCAGGTCAATGAACAAGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G44900.1 (Arabidopsis thaliana), 3'ss of exon 2
acaagattagtgtcattattatgaaacttgacattttta----ttgattttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
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gttacttcttcttctttttttttttgcttgtcatttttcatactggaattttgatacttttgactgggacacactaacattgttcttttat-ctgattttttagGCTATTGCAAATTTGTCGGTAAATGCTAATATTGCAAAGTCTGTTGCTGAAGAAGGAGGAATCAAAATTCTTGCTGGTTTGGCAAAGTCAATGAACAGACMapped 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|30304269|gb|CB981063.1|CB981063EST: TGAACCTTGCAAGATCTTGGCGGGAGGGGCTTCAGTCAGAAGCTGCAAAG GCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGAT
genomic: TGAACCTTGCAAGATCTTGGCGGGAGGGGCTTCAGTCAGAAGCTGCAAAGgtaagatttt ... gcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
atttaat putative branch site (score: 4)
aaaccaatttaatttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaagttgtggaaaccaatttaatttgttaaaatctgttgcatatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - tggattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaccaa