Sequence
atgc intronic sequence ATGC exonic sequence...cagcttgcatttgcacatgtttgtgtttacattagcacatattgtatatatgaagtgatctgttgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G48840.1 (Glycine max), 3'ss of exon 4
-cagcttgcatttgcacatgtttgtgtttacattagcacatattgtatatatgaagtgatctgttgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
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tgattcttcagttgtatgttttttcaaatcttgtcctctccattgagggatgtaagtgaattggtctaggatgattaacataactactgt-taaatatcagGCTGCTCGTGCATTGGCTAACTTAGCTGCCCATGGAGATAGTAACAGTAACAATGCCGCTGTTGGACAAGAAGCAGGTGCTCTTGATGCTCTCGTTCAAC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 5
-cagcttgcatttgcacatgtttgtgtttacattagcacatattgtatatatgaagtgatctgttgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
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tgattcttcagttgtatgttttttaaaatcttgtcctctccattgagggatgcacatgaattggtgtgggatgattaacataactacctt-taaacatcagGCTGCTCGGGCATTGGCTAACTTAGCTGCCCATGGAGATAGTAACAGTAACAATGCTGCCGTTGGACAAGAAGCAGGTGCCCTTGAGGCTCTTGTTCAAC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G44900.1 (Arabidopsis thaliana), 3'ss of exon 5
cagcttgcatttgcacatgtttgtgtttacattagcacatattgtatatatgaagtgatctgttgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
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------------gtaaat-tccgtttctttatttttacaaaatttctttgtgagttga---gtttgtggtttaacg--gtgtttt-----tattttccagGCTGCTCGTGCTTTAGCTAATTTGGCTGCTCATGGAGATAGCAACAATAATAATGCTGCGGTTGGGCAAGAAGCAGGTGCATTAGAAGCTCTTGTCCAAC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G60350.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------cagcttgcatttgcacatgt-ttgtgtttacattagca-catattgtatatatga-agtgatctgt-tgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
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gtatttccttgttttcgaatgcacctcatttttatttttttattgattcgatgcttgtagtattttgagttccggatggcagtgagtgtgtgaactgagt-ttgtgacaaattgtcttatttcagGCGGCTCGTGCTTTGGCTAATCTAGCTGCTCATGGTGATAGCAACGGTAATAATGCTGCTGTTGGACAAGAGGCTGGTGCATTGGAAGCTCTTGTTCAGC
upper sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S13_130V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------------cagcttgcattt-gcacatg---tttgtgtttacat-tagcacatattgtatatatgaagtgatctgttgctaatt------aattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
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gtgcggggcaatcagactctgaggtcgcggtgttggaatcggagtttggttttcgtggatgaggtgcacgtccagaggttgtatgggctgtagtttttgggagagcttgtggtggttctcagtacaggtcttgaaatcgtgattgtttgcagGCAGCGCGCGCCTTGGCCAATCTCGCCACTCATGGAGACAGCAACGGTAATAATGCTGCTGTGGGGCGGGAGGCAGGCGCACTTGAAGCTCTCGTGCGCCMapped 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|34545402|gb|CF513634.1|CF513634EST: CTTTGGTTATGCTTGCTCGGAACTGCAAGTTTGAAGGAGTGCAAGAGCAG GCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAACAACAGCAAC
genomic: CTTTGGTTATGCTTGCTCGGAACTGCAAGTTTGAAGGAGTGCAAGAGCAGgtagtactgc ... tacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatgaagtgatctgttgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
taattaattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagcttgcatttgcacatgtttgtgtttacattagcacatattgtatatatgaagtgatctgttgctaattaattgtcgtgacttctgagtacataccagGCTGCACGTGCCTTGGCTAATTTGGCTGCTCATGGAGATAGCAACAGCAACAATGCTGCTGTTGGACAAGAGGCAGGTGCACTTGAAGCACTTGTGCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- gcttgca
- - - - - - gcacatg
- - - - - - - - - - - - - - - - - gcacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct