Sequence
atgc intronic sequence ATGC exonic sequence...aaaaaatagttatgctaatatcagtacaatattgtctaaaattgattttctttaatgcctgtattaagtctttcagagattaagtgtgcgtcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTCTGAAGAAATAGCTGAAATGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G03040.1 (Glycine max), 3'ss of exon 4
aaaaaatagttatgctaatatcagtacaatattgtctaaaattgattttctttaatgcctgtattaagtctttcaga--gattaagtgtgcg-tcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTCTGA---AGAAATAGCTGAAATGCCT
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ttaggatattt---ctagtttgggtttctttgtaaaccagctctagtttttatggtcattaaattgtttctcaatgtttgattcaatatttgatgtgctgcagATTGTAATCACACTCGAAATATATGGTGTAACAAAGATTGTGGGTATTCCTTTTGGTTATCGTGGATTTTCAGACAAAGAGCTGACAGAAGTTCCA
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G21720.1 (Glycine max), 3'ss of exon 5
aaaaaatagttatgctaatatcagtacaatattgt---ctaaaattgattttctttaatgcctgtattaagtct----ttcagagattaagtg-tgcgtcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTCTGA---AGAAATAGCTGAAATGCCT
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--------gatgttccgatttcaactcccttttgtaaacttagttctagttattttggtcactatattgtttctctgtttaatggcttcaataatgaatgtccagcagATTGTAATCACCCTTGAAATATATGGTGTAAAAAACATCGTGGGGATTCCTTTTGGTTATCGGGGATTTTCTGACAAAGAATTGACAGAAGTGCCG
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G38450.1 (Glycine max), 3'ss of exon 4
aaaaaatagttatgctaatatcagt--acaatattgtctaaaattgattttctttaatgcctgtattaagtctttcagagattaagtg-tgcgtcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTCTGA---AGAAATAGCTGAAATGCCT
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---atgttcttatttcaactcccttttgtaaacttagttctagttatttttggtcactatattgtttctctgtttaatggcttcaataatgaatgccctgcagATTGTAATCACCCTTGAAATATATGGTGTAAAAAACATCGTGGGGATTCCTTTTGGTTACCGGGGATTTTCTGACGAAGAATTGACAGAAGTGCCG
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G04570.1 (Glycine max), 3'ss of exon 5
aaaaaatagttatgctaatatcagtacaatattgtcta-aaattgattt----tctttaatgcctgtattaagtctttcagagattaagtg-----tgcgtcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTC---TGAAGAAATAGCTGAAATGCCT
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----------taggatattcctagtttggctttctttataaaccagcttctagtttttaaggtcattaaattgtttctcaatgtttgattcaatattggatgtgctgcagATTGTAGTCACACTCGAAATATACGATGTAACAA---TTGTGGGTATTCCTTTTGGTTATCGTGGATTTTCAGACGAAGAGCTGACAGAGGTTCCCMapped 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|71859409|gb|DT008464.1|DT008464EST: ATGTTATCAGACAG ATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCT
genomic: ATGTTATCAGACAGgtagttagca ... tcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCT
EST:
gi|110373946|gb|EC938978.1|EC938978EST: TTGTAACTTGCGGAGGGCTCTGCCCTGGTCTTAATGATGTTATCAGACAG ATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCT
genomic: TTGTAACTTGCGGAGGGCTCTGCCCTGGTCTTAATGATGTTATCAGACAGgtagttagca ... tcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttctttaatgcctgtattaagtctttcagagattaagtgtgcgtcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTCTGAAGAAATAGCTGAAATGCCT
ctttaat putative branch site (score: 4)
cgtcttct putative PPT
tgtattaa 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
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aaaaaatagttatgctaatatcagtacaatattgtctaaaattgattttctttaatgcctgtattaagtctttcagagattaagtgtgcgtcttctgcagATTGTTATTACACTCGAAATATATGGTGTAAAAAACATTGTGGGAATTCCTTTTGGCTATCGTGGATTTTCTGAAGAAATAGCTGAAATGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
aaaaaat
- - - - gttatgc
- - - - - - - - - - - - - - - - - - - aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcctgt