Sequence
atgc intronic sequence ATGC exonic sequence...tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 3'ss of exon 5
tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctt----tcacactttgaaaaa-gtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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----------gtaagtttcatcagcttctcagtctataagatacatgttgtttctgttgtcggaatttgtttgatgatattttggcgggttaatcatgatcacagACTAGCTTACCTTCATGAAGCTATAGAACCAAAAGTTGTGCACCGAGATATAAAATCAAGCAATATCTTGATTGATGAGGAATTTAATGGCAAGGTCTCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 4
tattccattcagaactgaaatctactccagaactgaaa------ttgaacatcttgg-tctttcacactttgaaaa--agtcaaaaaa---atgtttcata------ttgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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-gtaagaaaca-aaccatcgtccccgtcaaaaagaaaagaattgttcttcactttagctcttttatatgtatatgtttagttgcataacccattttccataactgaattggtatacagGCTTGCTTATTTACATGAAGCAATAGAGCCAAAAGTTGTACACCGGGATATCAAATCAAGCAACATACTAATCGATGAAGAATTCAATGGCAAACTTTCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 4
tattccattcagaactgaaatctactccagaactgaaat-tgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattg----ggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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--------gtaagtttcaatcttaatctgtaagttacctacatagtttcctgtgtttttagctgtataaaattggttcttatttttctaattatgatggttgcagGCTTGCTTACCTTCATGAAGCTATTGAGCCAAAAGTTGTACATCGAGATATAAAATCAAGCAACATATTGATTGATGATGAATTTAATGGCAAAGTATCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 3
--tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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ccagtagcttagagtagcttagtcgtctgttcgtgtcaaagattcaatgatggaccttgttctcctgattaaccccttag--tgtactgtgattggtggcagGCTTGCTTATTTACATGAAGCAATAGAACCAAAAGTTATTCACCGGGATATAAAGTCTAGCAACATATTGATTGATGATGAATTCAATGCAAAGGTTTCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 3
-----tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT-
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gtgcttgcttcactggatacctaatttactgttatggc--agtttcaacattaggcctaattccactgattaaactcctta----tttactatgactggtggcaggCTAGCTTACTTACATGAAGCAATAGAACCGAAAGTTGTTCACCGGGATATAAAGTCTAGCAACATATTGATTGATACTGAGTTCAATGCAAAGGTTTCTG
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 5
-tattccattcag--aactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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atattttacttaattagttacaaatttatttttatggaagattcaacgatggaacttgttctgct---aattaacccccctaatgtactgtgactggtggcagGCTTGCTTATTTACATGAAGCAATAGAACCAAAAGTTATTCACCGGGATATAAAGTCTAGCAACATATTGATTGACGATGAATTCAATGCAAAGGTTTCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 3
------tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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tgtgcttgcttcattggatacctaatttactgttatggc--agtttcaacattaggcctaattccactgattaaactcctta----tttactatgactggtggcagGCTAGCTTACTTACATGAAGCAATAGAACCGAAAGTCGTTCACCGGGATATAAAGTCAAGCAACATATTGATTGATACTGATTTCAATGCAAAGGTTTCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 4
-tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattggg---ttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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gtaagttgtttaaaa-tgtgactgttgttggaccttttacttgaaatttcaaaaa--caactctttaaggggatattgacatgctctgtactacaattttacagGCTTGCTTATTTACATGAAGCAATAGAACCAAAAGTAGTCCACAGAGACATAAAAGCAAGCAATATCCTGATTGACGATGACTTCAATGCAAAGCTTTCT
upper sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 3
tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
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------gtaagtggtttgaaacagttt---agcttttgttggatatgttcaatgcttgattattaaaagggtctgcaa-----tttgtacaactttacagGCTTGCTTACTTGCATGAAGCAATAGAACCAAAAGTGGTCCACAGAGACATAAAAGCAAGTAATATATTGATTGATGATGAGTTTAATGCAAAACTCTCTMapped 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|71875365|gb|DT024420.1|DT024420EST: AACCTTACTTGGGAGGCCCGCATGAAGGTTATTCTTGGTACAGCCAAGGC GCTTGCCTATTTGCATG
genomic: AACCTTACTTGGGAGGCCCGCATGAAGGTTATTCTTGGTACAGCCAAGGCgtaagtccat ... tgggttgcagGCTTGCCTATTTGCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
aaaaaaatgtttcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattccattcagaactgaaatctactccagaactgaaattgaacatcttggtctttcacactttgaaaaagtcaaaaaaatgtttcatattgggttgcagGCTTGCCTATTTGCATGAGGCAATAGAACCGAAAGTTGTTCATCGAGACATAAAATCAAGCAACATCTTGATTGATGATGAGTTCAATGCAAAGGTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - ccattca
- - - - - - aactgaaa
- - - - - - - - - - -ctactcc
- - - - - - - - - - - - - - - - - -aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa