Sequence
atgc intronic sequence ATGC exonic sequence...acctccatcttatgttcggattacttggaatctgtggcacttgtctaatatttgtttactatatttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G10200.1 (Glycine max), 3'ss of exon 3
------acctccatcttatgttcggattacttggaatctgtggcacttgtctaatatttgtttactatatttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
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tttgggatgtggaaccaaacat--gattaatttgt-tatgttgaa-ttgtctt-tgattgtttttcataactgttttctttctggatttgtgtttt-tggcttcagAGAATGCAAGTGATGGGCGCTATCCCCAA-----------------------------------------------------------------------
upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G34790.2 (Glycine max), 3'ss of exon 2
acctccatcttatgttcggattacttggaatctgtggcacttgtctaatatttgtttactat-atttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
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-ggttgtggttgttgtagggttacttgatctaaaggatttttttctacattttttttgtggtcatagattgttgttgtcatgggttgtctttttgattcagAGAATGCAAGTGATGGGCGCTATCCTCCTGTCTCTCAAAATTCATGCAGTCCAGGTTCTGTAATGAGTAAATTGAGGAAGAAATCGAGCCCAGCTAGCAA
upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G01680.4 (Glycine max), 3'ss of exon 2
-----acctccatcttatgttcggattacttggaatctgtggc-acttgtctaatatttgtttactatatttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
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ccgatgtctctgtttggttgtatgattgatttg---ttgtggtgaattgtctt-tgattgtttcccataact--gttttctttctggatttgtgattttggctcagAGAATGCAAGTGATGGGCGCTATCCTCAGGTCTCTCAAAATTCATGTAGTCCTCGTTCAATGATGGCCAATTTGAGGAGGAAATCTACTCCTTTTAGCAG
upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G19940.1 (Glycine max), 3'ss of exon 2
----acctccatcttatgttcggattacttggaatctgtggcacttg-tctaatatttgtttactatatttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
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aaaggaaatcttggtaaataaaggttgtgttgatgtagggttatttgatctaaaagatatttttttgtgatctggttttgggtt----gtctattttgatt-cagAGAATGCAAGTGATGGGCGCTATCCTCCTGTCTCTCAAAATTCATGTAGTCCGGGTTCTGTAATGAGTAAATTGAGGAAGAAGTCGAGCCAAGTTAGCAAMapped 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|122691183|gb|EC963796.1|EC963796EST: TGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCATCTTCCAAAG AGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTG
genomic: TGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCATCTTCCAAAGgtaaaagaat ... gtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTG
EST:
gi|110423718|gb|EC990069.1|EC990069EST: TGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCATCTTCCAAAG AGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTG
genomic: TGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCATCTTCCAAAGgtaaaagaat ... gtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatatttgtttactatatttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
gtctaat putative branch site (score: 3)
tttgtttactatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acctccatcttatgttcggattacttggaatctgtggcacttgtctaatatttgtttactatatttccattttctgccctttggtctgttgtgggtacagAGAATGCAAGTGATGGGCGCTACCCACTTGAGTCCAGAAATTCTTGCACTGGTGGCTCTGAAGTGCCTCTGATGAGGAAGAAATCCATTCCAACCAGTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
acctcca
- - - - - - - - - - -tacttgg
- - - - - - - - - - - - - - - - - - gcacttg