Sequence
atgc intronic sequence ATGC exonic sequencegtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 3'ss of exon 5
gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcata--cagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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--gtaggttctatggtcaattttatttg--tgaaaattac-tctaataccataat-----ctccaggaattctcataccctcctaaaaatcagGTGCATTTGCTGTGTACTTGGAGCCTTGGCATGCGGATATTTTTGAGTTCCTTGATCTGAGAAAGAATCATGGGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 5
gtaca-atcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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gtaaataccatcagttagttagacatggacctaatttacatgttcagtgttcaggattt--cttatggattcctaacatta-----atttagGTGCATTTGCTATATACTTGGAGCCTTGGCATGCTGATATTTTTGAGTTCCTTGATTTAAGAAAGAACCATGGAAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G304362_T01 (Zea mays), 3'ss of exon 5
gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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gtatgtttcttcattatcgtcgcttttagttcct--tcatcttcagaaattctaacgagcttc---------taaaaactt--------agGTGCATTTGCTGTATACTTGGAGCCTTGGCATGCTGATATTTTTGAGTTCCTTGATCTGAGAAAGAACCATGGGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 5
gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcatac--agGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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--------------gtatgctttttttcattatttccact-tttagtaacat-----cgtcttcagaaattcttatgagcttctaaaacttagGTGCATTTGCTGTATACTTGGAGCCTTGGCATGCTGATATTTTCGAGTTCCTTGATCTAAGAAAGAACCATGGGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 5
---gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaat-ttgattgtgccttgtgtaaatgtgataatctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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gtaaaataatcatttacactgttgataatttctacattgtaattttaatgaatatttataaattgtcttgcacattttgtgtttcttgta----gGTGCATTTGCTGTGTACCTGGAGCCATGGCATGCTGATATATTTGAATTCTTGGATTTAAGGAAAAACCATGGAAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 5
gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataat-ctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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gta-gattatttataagcaattcctatgtttcatggctccttgtaag---ttgcttctcttacctgtatgtatgattatgctcttcttttagGTGCATTTGCTGTGTACTTGGAGCCATGGCATGCTGATATGTTTGAATTCTTGGATTTAAGGAAAAATCATGGGAAG
upper sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G39500.1 (Glycine max), 3'ss of exon 5
gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataat-ctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
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gta-gattatttataagcaattcaaatgtttcatggctccttgtaagtttcttttcttacct---gtatgtatgattatgctcttcttttagGTGCATTTGCTGTGTACTTGGAGCCATGGCATGCTGATATGTTTGAATTCTTGGATTTAAGGAAAAATCATGGGAAGMapped 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|161714052|gb|FC064127.1|FC064127EST: GTTCAATGACACTGCCCGTTATGTTGATCAAGGAGGAGGCAAGAGGAAGG GTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTC
genomic: GTTCAATGACACTGCCCGTTATGTTGATCAAGGAGGAGGCAAGAGGAAGGgtacaatcat ... ctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
atttgat putative branch site (score: 5)
tctctgc putative PPT
ttcaaaaatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatcattaaaccttgctttattttgctgagggtaatgttcaaaaatttgattgtgccttgtgtaaatgtgataatctctgcatacagGTGCTTTTGCTGTGTACTTGGAGCCATGGCATGCTGACATATTTGAGTTTCTAGATCTTAGGAAAAACCATGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA