Sequence
atgc intronic sequence ATGC exonic sequence...tatgctgattcactttcatggcatttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G069009_T03 (Zea mays), 3'ss of exon 1
tatgctgattcactttcatggcatttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatg----catctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
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--tgttgccctttttttagttcctttttgcacttttttagt-tcttgtttgtgccttttcagttttcaatacatcttcatctgaagcttctct-tgatgtgcagGGTTCTCAGCCATGTGCTTACTATGCACACCATGGGTATTGCAAGTTTGGGCCGACATGCAAGTTTGATCACCCGATGGGTACTCCAAACTATAGTATTT
upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G475017_T01 (Zea mays), 3'ss of exon 6
tatgctgattcactttcatggcatttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatg----catctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
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---gttgccttttttttgagttcctgtttgcccttttttagttattgtttgcgctttttcagttttcagtacatcttcatctgaagcttacat-tggtgtgcagGGTTCTCAGCGATGTGCTTACTACGCACACCATGGCTTTTGCAAGTTTGGGCCGACATGCAAGTTTGATCACCCGATGGGTACTCCAAACTACAGTCTTC
upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G37980.1 (Glycine max), 3'ss of exon 6
-tatgctgattcactttcatggcatttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
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ctgcaatgacaaatttgtctgttctgttgattttctttaattaaattgtctgactgcattcataaattcttaattgtcacgtattgt-gtttgataatcagGGGGCACCACCTTGCACTCATTATACCCAGCGTGGAGTTTGCAAGTTTGGTTCTGCATGCAAATTTGATCATCCTATGGGATCACTGAGTTATAGTCCAT
upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G02720.2 (Glycine max), 3'ss of exon 5
tatgctgattcactttcatggcat-ttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
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tgcaatgacaaatttgtctgttctgtcgatttttttttaattaaattgtctgactgcattcataaattcttgattgt-taagtattgtgtttgataatcagGGGGCACCACCTTGCACTCATTATACCCAGCGTGGAGTTTGCAAGTTTGGTTCTGCATGCAAATTTGATCATCCTATGGGATCACTCAGTTATAGTCCAT
upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G28820.1 (Glycine max), 3'ss of exon 6
--tatgctgattcactttcatgg-catttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
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ttagtaacgataagattgcctattcaattgaattgtttttgaaaa-atatcttgactgccttcttaa-tcgtctca-atctaatgtttgtgtttgataatcagGGGGCACCAGCTTGCACTCATTATGCACAACATGGAGTATGTAAGTTTGGTTCTGCATGTAAATTCGATCATCCTATGGGATCAATGAGTTATAGTCCAT
upper sequence: Vv05s0020g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G10230.1 (Glycine max), 3'ss of exon 6
----tatgctgattcactttcatgg-catttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAA---TGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
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acttggtaatgataagtttgcctattcaattgaattgtttatgaaaa-atttcttgactgccttctta----atcatcaatctaatgtttgtgtttgataatcagGGGGCGGCACCAGCTTGCATTCATTATGCACAACATGGAGTGTGTAAGTTTGGTTCTGCATGCAAATTCGATCATCATATGGGATCACTGAGTTATAGTC---Mapped 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|351040199|gb|FQ425285.1|FQ425285EST: CAAATTGTGTCCTTAGTCCGATGGGTCTTCCTCTCCGTCCA GGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGG
genomic: CAAATTGTGTCCTTAGTCCGATGGGTCTTCCTCTCCGTCCAgtaagcatct ... tgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
atctgac putative branch site (score: 3)
ttcttatatgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgctgattcactttcatggcatttgttctatacatgcgtgtgttaattgaatatcttcttgtcttgtcatgcatctgaccttcttatatgattatcagGGTGCACCCCAATGCACTCACTATGCACAACGTGGAATATGCAAGTTTGGGCCCACATGCAAATTTGATCACCCAATGGGAACACTGAGTTATAGTCCAT
tatgctg
- - - - - - - -tcatggc
- - - - - - - - - - - - - - - - - catgcgt
- - - - - - - - - - - - - - - - - - - - - - - aattgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttctt