Sequence
atgc intronic sequence ATGC exonic sequencegtaactctctttcacacgcacattttactttattcatatatttttatctagatcacatctttctatcatgcgaatatcctgaaaattttgacaaatttactcgaaaatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04850.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G368410_T01 (Zea mays), 3'ss of exon 5
gtaactctctttcacacgcacattttactttattcatatatttttatctagatcacatcttt-ctatcatgcgaatatcctgaaaattttgacaaatttactcgaaaatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
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---------ttccgcattaacatgc-accatgatctcgcacctttacatattgcagatgtttacggcctttaaaattagacttcaatgacgacccgccatcacgatg-cagGTGCACCAGTCATCCTTGGACGCAGCCTCGTCGCTCCTCGTCACTGCACTCAACGAAGGCCGGGACGTGATCATGGATGGCACTCTGTCCTGGGAGCCGT
upper sequence: Vv05s0020g04850.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G34750.1 (Glycine max), 3'ss of exon 5
gtaactctctttcacacgcacattttactttattcatatatttttatctagatcacatctttctatcatgcgaatatc---ctgaaaattttgacaaatttactcgaa----aatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
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---------------ttgca-atttagctatgatgaaatggatg-acatatattagatccttaattgtaacctatttttaactgatgattgcatctaatttatcaaaatctgaacagGTGCATCAATCTTCCACTGATGCTGCATCATCTCTGCTGGTGACAGCTCTAAATGAGGGTCGAGATGTGATCATGGATGGTACCTTATCATGGGAACCAT
upper sequence: Vv05s0020g04850.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G34760.1 (Glycine max), 3'ss of exon 4
-gtaactctctttcacacgcacattttactttattcatatatttttatctagatcacatctttctatcatgcgaatatcctgaaaattttgacaaatttactcgaaaatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
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tgcaatttagctatgatgaaatggatgacatacattagatccttaattgtaagcta----tttttaactgatgattgcatttaa--ttttaacaaaattt-----gaacagGTGCATCAATCTTCCACTGATGCTGCATCATCTCTGCTGGTGACAGCTCTAAATGAGGGTCGAGATGTGATCATGGATGGTACCTTATCATGGGAACCAT
upper sequence: Vv05s0020g04850.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G32900.2 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------------------------gtaactc-tctttcacacgcacattttactttattcatatatttttatctagatcacatctttctatcatgcgaatatcc--tgaaaattttgac-aaatttactcgaa----aatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
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gtatgcttctgtgtgaacatgacctccatgttattattatcatttttccactaactctccacactaatgtatgtgcagcatgtgactaatgttataggaatccaaaatatattatcaaaatggatg-agatatattagatccttataagctatttttaacaaatgattgctttaattaaatttatcaaaatctgaacagGTGCATCAATCTTCCACTGATGCTGCATCATCTCTGCTAGTGACAGCTTTAAATGAGGGTCGAGATGTGATCATGGATGGTACCTTATCATGGGAACCATMapped 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|22014614|gb|BQ799648.1|BQ799648EST: CATGACATG-TTC-AACTGCTGAGCTG GTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTG
genomic: CATGACATGCTTCAAACTGCTGAGCTGgtaactctct ... tcgaaaatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catctttctatcatgcgaatatcctgaaaattttgacaaatttactcgaaaatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
ttttgac putative branch site (score: 3)
tttactc putative PPT
aaaattttgacaaatt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactctctttcacacgcacattttactttattcatatatttttatctagatcacatctttctatcatgcgaatatcctgaaaattttgacaaatttactcgaaaatagGTGCACCAGTCATCCACCGATGCAGCATCATCACTCCTTGTGACTGCCCTGAATGAAGGCCGCGATGTGATCATGGATGGAACGTTATCATGGGAGCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA