Sequence
atgc intronic sequence ATGC exonic sequence...attattttgttgtatgcgtttttcctgaaaattgtagaatttgaatatcttgaaaaatatccttttgtggataaggagcctaataattttactccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os11g42420.1 (Oryza sativa), 3'ss of exon 7
------attattttgttgtatgcgtttttcctgaaaattgtagaatttgaatatcttgaaaaatatccttttgtggataaggagcctaataattttactccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
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aataaagctgcttccttcaatagtcattttctaaatatctcatgtttt-agcatctctaatgaagtaataatg---gttaacatctttct--ttgtgtgggagcagAAGCAAGATGAATTGCTTTTAGAGGATATCTGGACTCTCTTGAGAGCAGGAAGGTTAGAAGAGGCATCTGAACTGTGTCGGTCTGCTGGTCAG
upper sequence: Vv09s0002g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G348675_T02 (Zea mays), 3'ss of exon 7
---attattttgttgtatgcgtttttcctgaaaattgtagaatttgaatatcttgaaaaatatccttttgtggataaggagcctaataattttactccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
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ctaatttcattaaagaacgatgtctaccagcaaaatttccctttcatttagtgcctcaagtatagtaataccga---atttccttttgtttttctataagcagAAGCAAGATGAATTGCTTCTAGAAGATATATGGACTCTTTTAAGAGCAGGAAGATTAGAAGAGGCATCTGACTTGTGCCGTTCTGCTGGCCAG
upper sequence: Vv09s0002g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G04680.1 (Glycine max), 3'ss of exon 4
attattttgttgtatgcgtttttcctgaaaat-tgtagaatttgaatatcttgaaaaatatccttttgtggataaggagcctaataattttactcca-atagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
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atttattgatgatgacagaatagtgagactgcatgcacactcctagttggctagtccataatgtagtgtgtcaataatgctttgt--tttttctggatgcagAAACAAGATGAATCTCTTCTAGAAGATGTATGGATTCTTTTAAGGGCTGGAAGGCTAGAAGAGGCTTGTGGACTTTGCCGGTCCGCTGGACAG
upper sequence: Vv09s0002g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G14120.1 (Arabidopsis thaliana), 3'ss of exon 7
-attattttgttgtatgcgtttttcctgaaaattgtagaatttgaatatcttgaaaaatatccttttgtggataaggagcctaat-aattttactccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
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tctagtttccatgtggatgcctatatctatactt-tgaaggtcatctttcgttgtcgttattgttgt-taaataaaatcaatatttggaccttttttggcagAAACAAGATGAATCTGTTCTTGAGGATGTATGGACTTTGATAAGGGCTGGGAGAATAGAAGAGGCATGTGATCTCTGCAGGTCTGCTGGGCAGMapped 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|352781037|gb|FQ466350.1|FQ466350EST: CATGCTCCTCTGCTACCTGATGACAAA AAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGA
genomic: CATGCTCCTCTGCTACCTGATGACAAAgtactcttgt ... actccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcttgaaaaatatccttttgtggataaggagcctaataattttactccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
gcctaat putative branch site (score: 3)
ttttactcc putative PPT
taataattttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attattttgttgtatgcgtttttcctgaaaattgtagaatttgaatatcttgaaaaatatccttttgtggataaggagcctaataattttactccaatagAAACAAGATGAATCTCTTCTAGAAGATGTCTGGACTCTATTAAGGGCAGGAAGGCTGGAAGAGGCTTGTGACCTTTGCCGGTCTGCTGGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - -gtatgcg
- - - - - - - - - - - - - gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - tgaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataagga