Sequence
atgc intronic sequence ATGC exonic sequencegtgcggagtggttgtttgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 3
--------------------gtgcggagtggttgtttg---tggattgttttgtgtggttttgggagtg-gggttttgattgttgcgtttttgcgcttttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
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gtgagaattgaactgatcccgttctgtctt-tcatttacattgttttgtttttcgccaatgtgtgagcgtgtgttatgtgaatgatgttgttctggaaaatgtggtagGTTTCAATTGCGAGGACTTGCAATTGCATTTACTTCTTGCTCCAGCAGAGACAGCGCGACGTTGAATTTAGAGAGTCTGCTAATGATCAAAGACAACG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G07040.2 (Glycine max), 3'ss of exon 3
---------------gtgcggagtggttgtt--tgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttg------gtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
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gtgagtattgaactgatcccgttccgtctttcatgtgcattgttttttgcgccaatgtatgtagtatgcacattatgtgaatgatgctgttttgaaaaatgtggtagGTTTCAATTGCGAGGACTTGCAATTGCATTTACGTCTTGCTGCAGCAGAGACAGCGCGACGTGGAGTTTAGAGAGTCTGCTAATGATCAAAGACAACG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G57410.3 (Arabidopsis thaliana), 3'ss of exon 3
gtgcggagtggttgtttgtggattgttttgtgtggttttgggagt---ggggttttgattgttgcgtttttgcgcttttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
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-------gtaggttcttattattgatgctgaaattgtttggatgttttggggttttaatta--gggtttttg----tttgatt-tagGTTTCTATATCAAGGACCTGCAATTGTATGTACTCGTTGCTGCAGCAGCGACAACGTGATATAGAGTTTAGAGAATCTGCTAATGAGCTGAGACAGAG
upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G18876.2 (Arabidopsis thaliana), 3'ss of exon 1
gtgcggagtggttgtttgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
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gtgcgttttaatcattctctaattgttttttttcgtttatcgatttg---tttgatgaagctgattcgatgaacttg-tattagGTTTCGATTGCTAGAACTTGCAATTGCGTATACGCTTTGATTCAACAGAGGCAACGAGATGTGGAATTTAGAGAATCTGCTAATGATCAGAGACAACGMapped 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|294964330|gb|GW838133.1|GW838133EST: TCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCG GTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGG
genomic: TCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtg ... ttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
ttttgat putative branch site (score: 4)
cgctttt putative PPT
ttttgatt 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
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gtgcggagtggttgtttgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGGCAGCGTGATGTTGAATTTAGGGAGTCTGCTAATGAGCAGAGACAGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG