Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgagatgaaaatatgatttattattttttatatgctacaaatggttctgttgcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 5
gtgagtgagatgaaaatatgatttattattttttatatgctacaaatggttctgttgcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
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---------------gtaagttttctagttgttcgt------caatatattcttgaatgttcatgtttaattagctcagttaat---atgatatttttctttctattacagAATGTCTGTTGAAATGGTTGCTTGTATTGCTATAGAAGCAATCTCCATATTGGAGAAGATGCATTCGAAAGG
upper sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 5
gtgagtgagatgaaaatatgatttattattttttatatgctacaaatggttct--gttgcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
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---------gtaagtatctaatgcagttccaatttttttctttaaaatgttctcgtctggttttctcagtttct-----taattg---attcaatttgttcctttaa---cagTATGCCTGTTGAAATGGTGGCTTGCATTGCTATAGAAGCAATTTCCATACTGGAGAAGATGCACTCAAAAGG
upper sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G09190.1 (Glycine max), 3'ss of exon 5
gtgagtgagatgaaaatatgatttattattttttatatgctacaa-atggttc-tgttgcttttaccatt-ttgtgcttgtatttgcctaatgaagatatttgctt---aattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
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---------------------gtgagtatctctgaaatgttgaaatgtaatgcatcttatttttcttaatgttatagagaatattgaatagcgactctttttccttttgggtttcagGATGTCTACTGAAATGGTTGCATGTATTGCAATTGAGGCTATCTCCATATTAGAGAAGATGCATTCTAGAGG
upper sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G09080.1 (Glycine max), 3'ss of exon 5
gtgagtgagatgaaaatatgat-ttattattttttatatgctacaaatggttctgttgcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
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gtgagtatctatctgaaatgatattgaaatgtaatgcatcttatttttcttaatgttatagagaatattgaatagctaacttt---tatttctttttccttttgggtttcagGATGTCTACTGAAATGGTTGCATGTATTGCAATCGAGGCTATCTCCATATTAGAGAAGATGCATTCTAGAGG
upper sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------------gtgagtgagatgaaaatatgatt-tattattttttatatgctacaaatggttctgt--tgcttttaccattttgtgcttgtatttgcctaatga---agatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
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gtaaacattcactctgagaaacatttactttattttgtagcatctgaagattttgttatatgaaccattgataaacataatttttcctgagatgagcccttcaatat-tggtggcactcaccatatgatttgtgtgttttatacattccagGATGTCAACAGAGATGGTTGCATGCATTGCAATTGAGGCAATATCCATATTAGAAAAGATGCATTCTAGAGGMapped 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|352777715|gb|FQ466768.1|FQ466768EST: GACATGCTTGGACCAAGCTTGTGGGATGTTTGGAATAATAACTCTCACAC TATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATT
genomic: GACATGCTTGGACCAAGCTTGTGGGATGTTTGGAATAATAACTCTCACACgtgagtgaga ... ttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
tttgctt CT-rich tract
taatgaagatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgagatgaaaatatgatttattattttttatatgctacaaatggttctgttgcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccagTATGTCCATTGAAATGGTTGCATGCATTGCTATTGAAGCAATATCCATATTGGAGAAGATGCACTCCAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG