Sequence
atgc intronic sequence ATGC exonic sequence...tcacatgcttcctatctctgaatgaattaatgaatattgcttcctttgtggatacttgtggaagctattgcactttctgatactgattctgcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G19120.1 (Glycine max), 3'ss of exon 9
tcacat-gcttcctatctctgaatgaattaatgaatattgcttcctttgtggatacttgtggaagctattgcactttctgat-actgattctgcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
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--agatagggggatgtagacaggtggatagtttacctttctttagcttttaggcacttatgataatgtattcatattcggcttgttccttatcccctttcagGCATTGCTGAGCTTGGGGTGATGATGATGACCACTATTTTAGCAACCCTTGTCATGCTTCTTATATGGCAGATACACATCATCATTGTGCTGAGTTTTGT
upper sequence: Vv12s0142g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G05880.1 (Glycine max), 3'ss of exon 8
---tcacatgcttcctatctctgaatgaattaatgaatattgcttcctttgtggatacttgtggaagctattgcactttctgatactgattctgcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
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agtttagctttctttagcttttattttaggcaccgaacttagtt--cgttattgttatat-tataatgtattcatattcgtcttgctccttatcccctttcagGCATTGCTGAGCTCGGGGTGATGATGATGACCACTATTTTAGTAACCCTTGTTATGATTCTTATATGGCAGATACACATCATCATAGTGCTGAGTTTCGT
upper sequence: Vv12s0142g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G24530.1 (Glycine max), 3'ss of exon 8
-tcacatgcttcctatctctgaatgaattaatgaatattgcttcctttgtggatacttgtggaagctattgcactttctgatactgattctgc--ttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
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tttctttggttgttatgc---actgaatttacctttattataattttactacattatacaaaatatgcatttgttttcagcttgttcctttgtcgtctttcagGCATTGCTGAGCTGGGGGTGATGATGATGACCACTATTTTAGTAACTCTTGTTATGCTTCTTATATGGCAGATACACATCATTGTAGTGCTGAGTTTTGC
upper sequence: Vv12s0142g00170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G07720.1 (Glycine max), 3'ss of exon 6
tcacatgcttcctatctctg-aatgaattaatgaatattgcttcctttgtggatacttgtggaagctat-tgcactttctgatactgattctgc--ttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
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---aatatttgattgttatgcactgaatttacctttattattattgtactacat-tatataaaatatgcatttgttttcagcttgttcctttgtcgtctttcagGCATTGCTGAGCTGGGGGTGATGATGATGACCACTATTTTAGTAACTCTTGTTATGCTTCTTATATGGCAGATACACATCATTGTAGTGCTGAGTTTTGCMapped 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|110700216|gb|EE078004.1|EE078004EST: GGTGTTAGTCATCTTTATCTCAAATGTCAATGAGATTGGAAATGCATATG GCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTG
genomic: GGTGTTAGTCATCTTTATCTCAAATGTCAATGAGATTGGAAATGCATATGgtaaacttct ... gcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTG
EST:
gi|161718115|gb|FC066927.1|FC066927EST: GGTGTTAGTCATCTTTATCTCAAATGTCAATGAGATTGGAAATGCATATG GCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTG
genomic: GGTGTTAGTCATCTTTATCTCAAATGTCAATGAGATTGGAAATGCATATGgtaaacttct ... gcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtggatacttgtggaagctattgcactttctgatactgattctgcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
tactgat putative branch site (score: 2)
ttctgctttt CT-rich tract
ttttaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcacatgcttcctatctctgaatgaattaatgaatattgcttcctttgtggatacttgtggaagctattgcactttctgatactgattctgcttttacagGCATTGCCGAAATTGGGGTGATGATGATGACAACAATCTTAGTAACCATTGTTATGCTTCTTATATGGCAGATAAACATTATCATCGTGCTCAGTTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
-cacatgc
- - - - - - - - -ctgaatg
- - - - - - - - - - - - - - aatgaata
- - - - - - - - - - - - - - - - - - - - - - -ttgtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgattc