Sequence
atgc intronic sequence ATGC exonic sequence...acaccttgtctttgtctggtttgttaacttcctaaggtcattttagtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttcagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 6
acaccttgtctttgt-ctggtttgttaacttcctaaggtcatttta-gtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttca-gGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
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--agcttagatatatactcctttgcta-taccttattatcatatcgtatttgcaataattttgaaatttgtgttcactaacttgtgttattgataatttgaagGAGTGGGTGACCGATAATCCTTTTATCATATCACCAAGGATTACGTTTGAAGTCAGTGTTCGTCTTCTTGGAGGTTTGATGGCATTGGGATATACTATAG
upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 6
--acaccttgtctttgtctggtttgttaacttcctaaggtcattttagtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttc--agGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
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ctgctacttgtttctatt--gtccgt-gactacatgcaataaaca-aacccttgctggcagccctggtgttcactaactctcttattccattctgtgttcaaagGAATGGGTGACCGACAATTCTTTTATCATATCACCAAGGATCACTTTTGAAGTCAGTGTTCGTCTTCTTGGTGGTTTGATGGCATTGGGATATACTATAG
upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 6
acacct-tgtctttgtctggtttgttaacttcctaaggtcatttt--agtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttcagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
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atatatatatatatatata-tataccaattctccatacacgatttgaagagaatgaactttttacatggtgttaactaattgatgtcttgtaact--tttcagGAATGGGTGACAGATAATCCATTTGTCATATCACCAAGAATTACTTTTGAGGTCAGTGTGCGCCTTCTTGGTGGACTAATGGCTTTGGGATACACAATAG
upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 6
---acaccttgtct-ttgtctg-gtttgttaacttcctaaggtcattttagtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttcagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
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tttgtgttttgcatattatatatatataccaattccccacacttgattt-gtggagaatttttacacggtg-ttaactaat-tgatgtcttataact--tttcagGAATGGGTGACAGATAACCCATTTGTCATATCACCAAGAATTACTTTTGAGGTCAGTGTGCGCCTTCTTGGTGGACTAATGGCTTTGGGATACACAATAG
upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------acaccttgtc-tttgtctggtttgttaacttcctaaggtcattttagtccatgagaaatacgcgagacttgcccaatctgatcagt-----tggttctcattt-------cagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
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gtttgttcagagtttattttccatgttctcatcaatatgactattcaatatctggaaaagctgacaatccctctgattctggtaagatgcttagtatctggtgaataactgtggttctggttttgacaaccagGAATGGGTTACGGATACTCCTTTTGTCATATCCCCAAGGATTACATTTGAAGTCAGTGTTCGCCTACTTGGTGGGCTCATGGCATTGGGATACACAATAGMapped 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|294965244|gb|GW838931.1|GW838931EST: CATATTTAAGGATGCGGAATAAAGATGGAAAATACAGTCTCATGTTTGAG GAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAA
genomic: CATATTTAAGGATGCGGAATAAAGATGGAAAATACAGTCTCATGTTTGAGgtgagccgct ... ctcatttcagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttcagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
atctgat putative branch site (score: 4)
ttctcatttc putative PPT
agaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaccttgtctttgtctggtttgttaacttcctaaggtcattttagtccatgagaaatacgcgagacttgcccaatctgatcagttggttctcatttcagGAATGGGTTACTGATAATCCATTTGTTATATCACCAAGAATAACTTTTGAAGTCAGTGTGCGGCTTCTTGGTGGGCTAATGGCCTTGGGGTACACAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
acacctt
- - - - - - tgtctgg
- - - - - - - - - - - - - - - - - - - - - - - tccatga
- - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagttgg