Sequence
atgc intronic sequence ATGC exonic sequencegtgagcacatatgctggactctgatgtacttgtttttcatttgaatataatgagtatggtgagcacatactcatgattcctattaaacttgtgattgggatttaattctcatgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G17380.1 (Glycine max), 3'ss of exon 2
------------------------------gtgagcacatatgctggactctgatgt----acttgtttt-tcatttgaatataatgag--tatggtgagc--acatactcatgattcctattaa--acttgtgat-tgggatttaattctc-atgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
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gtaaagcccaattctggacattgtattgtagtgatggttttttctatatgccaatatgtgaatttgtttcctaatgtgcggagtgtgaacttcttgctagctggagcatacgttatttttgtcaagaattcttgatacattatgcaaaactctgcattgagccacttgaacttgtgttatcaa-cagGTGCTATGGCAATTGCAGTGGCAAATCCAACTGATCTTGTGAAAGTTAGACTTCAAGCAGAAGGAAAATTGCCTCCTGGCGTGCCCAAGCGCTACTCTGG
upper sequence: Vv08s0007g01700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G42220.1 (Glycine max), 3'ss of exon 2
-------------------------gtgagcacatatgctggactctgatgt----acttgtttttc-atttgaatataatgag--tatggtgagcacatactcatg--attcctat-taaacttgtgatt---------gggatttaattctcatgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
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ggtaaaggccaattctggacattgtaggaattttttttctatacactaatatgtgaatttgtttccggatctgtggagtgtcaacttcttgctagcaggagcatatgttatttctgtctagaattccgattcattatgcaaaagcaaaactataacattaagccacttgaacttgtgttatcaa-caGGTGCTATGGCAATTGCAGTGGCGAATCCAACTGATCTTGTGAAAGTTAGACTTCAAGCAGAAGGAAAATTACCTCCTGGTGTGCCCAGGCGTTACTCTG-
upper sequence: Vv08s0007g01700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G27120.1 (Glycine max), 3'ss of exon 2
---------------------------------gtgagcacatatgctggactctgatgtacttgtttttcatttgaatataatgagtatggtgagcacatact--catgattcctattaaacttgtgattgggatttaattctcatgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
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gtaaatctcaatgctggaaactgtgggaatattttgtatatatattctattctatgagtttcttttctcatctatggattatttactttttcttaggaggatcttgtattattcccatctaaatactcattgcaat--aactca-atcataaactcctcgaatttgtcttgtcaa-cagGTGCTTTTGCAATTGCAGTGGCAAATCCAACTGATCTTGTCAAAGTTAGACTTCAAGCAGAAGGAAAATTACCTCCTGGTGTTCCCAGGCGGTACTCTGG
upper sequence: Vv08s0007g01700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G14780.1 (Glycine max), 3'ss of exon 3
---------------------------------gtgagcacatatgctggactctgatgtacttgtttt-tcatttgaatataatgagtatggtgagcacatact-catgattcctattaaacttgtgattgggatttaattctcatgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
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gtaaatctcaatgctggaaattgtgggaataatttgtatatgtgtgctattatatgagtttcttttctaatctatggattatttactttttcttaggggcatcttgtgttattcctatctaaatactcatcgcaat--aactca-atcacgaactcgttcaatttgtcttgtcaa-cagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGACTTCAAGCTGAAGGAAAATTACCTCCTGGTGTTCCCAGGCGCTACTCTGGMapped 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|33407547|gb|CF213174.1|CF213174EST: TGTTGGAGATGTTCCTTTATCCAAGAAAATACTTGCTGCACTAACAACTG GTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGAC
genomic: TGTTGGAGATGTTCCTTTATCCAAGAAAATACTTGCTGCACTAACAACTGgtgagcacat ... aattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGAC
EST:
gi|161718697|gb|FC066335.1|FC066335EST: TGTTGGAGATGTTCCTTTATCCAAGAAAATACTTGCTGCACTAACAACTG GTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGAC
genomic: TGTTGGAGATGTTCCTTTATCCAAGAAAATACTTGCTGCACTAACAACTGgtgagcacat ... aattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgattgggatttaattctcatgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
gtttaat putative branch site (score: 4)
ttgtttaattctcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcacatatgctggactctgatgtacttgtttttcatttgaatataatgagtatggtgagcacatactcatgattcctattaaacttgtgattgggatttaattctcatgatgtacttgtttaattctcataattaaacagGTGGTCTAGCGATTACAATTGCCAATCCAACTGACCTTGTGAAAGTTCGACTTCAATCTGAAGGAAAATTGCCACCTGGTGTGCCAAGACGCTATTCCGG
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