Sequence
atgc intronic sequence ATGC exonic sequence...gatattctctgatgggttttggagactaactcattgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 2
gatattctctgatgggttttggagactaactcat-tgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcat--aatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
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--ttcttactgtattgtaatagaaaaaaagggacacattctgattttcaagtctttgacttattttgtctcaagtt-aatttgattccttttgttcaaaacagGCCCAGTTGAACTTGCAGCTGTTGGTGTATCTATTGCCGTGTTTAATCAAGTATCAAGGATTGCAATATTTCCCCTTGTCAGTGTCACGACATCATTTGT
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G870170_T01 (Zea mays), 3'ss of exon 2
gatattctctgatgggttttgga-gactaactcattgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccata--tagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
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aaagtagtgtgattctcttgaaacgatagatatgaagtttggttgctctttta--tatatgtatattggttgc-tctgatgttttttcatttgtgataaccagGTCCAGTTGAACTTGGAGCTGTAGGTGTATCAATTGCCGTGTTTAATCAGGTCTCAAGAATTGCAGTGTTCCCACTTGTTAGCGTCACAACATCATTTGT
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 2
---gatattctctgatgggttttggagactaactcattgttgtg-ttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
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ggaactaagtcaggatgtgagtgaaaaaaatcccaatgatcaagactatatttgtatgtatttgaatgcatcaagtgttaaatattatt----ggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACTTCTTTTGT
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G03930.1 (Glycine max), 3'ss of exon 2
-----gatattctctgatg--ggttttggagactaactcattgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
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aaatcagaaaccaaaaatccccatgatcaagactactttatttatatgta-tttgaatgccttata--atgcatctagtgttaaatattatt----ggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCGCTTGTCAGTGTCACAACCTCTTTTGT
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G51340.1 (Arabidopsis thaliana), 3'ss of exon 2
gatattctctgatgggttttggagactaactcatt-gttg--tgttcttttgataattgaaaggactcacatggtattcgatt-ttgtt-tcataatccat-atagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
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-----gtaacaacaagaacaacaactcttttcatttgtttattgttattttataaatgaaaattattggtgtaattttcggttcttgttgtggtgatgactgatagGTCCTGTAGAGCTTGCTGCAGTTGGAGTTTCTATTGCTTTATTCAACCAAGTTTCAAGAATTGCTATTTTCCCACTTGTTAGCATCACAACTTCCTTTGTMapped 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|110722935|gb|EE099669.1|EE099669EST: AGCAGATCCTATTGCTTCTCTGGTTGACACGGCATTCATTGGCCAGTTAG GTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAG
genomic: AGCAGATCCTATTGCTTCTCTGGTTGACACGGCATTCATTGGCCAGTTAGgtatgcattt ... atccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAG
EST:
gi|30300493|gb|CB977287.1|CB977287EST: AGCAGATCCTATTGCTTCTCTGGTTGACATGGCATTCATTGGCCAGTTAG GTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAG
genomic: AGCAGATCCTATTGCTTCTCTGGTTGACACGGCATTCATTGGCCAGTTAGgtatgcattt ... atccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
gactcac putative branch site (score: 2)
attttgtttcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatattctctgatgggttttggagactaactcattgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT
- - - - -tgatggg
- - - - - - - - - - - - - -aactcat
- - - - - - - - - - - - - - - - - - -tgtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcacatg