Sequence
atgc intronic sequence ATGC exonic sequencegtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os11g10100.1 (Oryza sativa), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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--------------------------------------------------------------------------------------gtaatgcaacaga-agttgaaaaaact--tctgtactctgccattttaagttggttgctt--atcattttctgttgttttctcatagaattttaattttc---------ctcagGTTATTATGAATACCAATGGCTACAGTCTTTCGGTCGATATTTGGAGCCTTGGCTGCACCATTATTGAGATGGCAACCGCAAGACCTCCTTGGATTCAGT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g35010.1 (Oryza sativa), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatct-cagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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------------------------------------------------------------------------------------------gtatacggtttcctgtttacaacacttggagcactgtgtcatatgttatgt------aat-ttacttcaccaagaacg----gtttgtccaactaaatgtaaaacgtgcagGTTGTAATGAATAACAAAGGATATAATCTTGCGGTTGATATATGGAGCCTTGGATGTACAATTATTGAGATGGCAACCGCGAAGCATCCCTGGTATCCGT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os04g35700.1 (Oryza sativa), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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--------------------------------------------------------------------------------------------------------gtaaattgtttttctaacagtaaacctttatataccgtattt-atcatcatctttatatgattctgaattctcctaatgattgtaacatg---cagGTTATAATGAACGGTAGAGGTTACCATCTACCAGTTGACATTTGGAGTTTGGGATGTACTATTATTGAAATGGCAACGGCAAAACCTCCTTGGCATAAAT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G39110.1 (Glycine max), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttg----tgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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----------------------------------------------------------------------------------------------gtaaagtattttctcctttcttttca--catcttgtaattacttctgaacaaaaatatccgtatctcttccactgtaagttgtaatgtatcctgacttttgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGCTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G15870.1 (Glycine max), 3'ss of exon 8
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttcttt--ttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgttt----gtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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-------------------------------------------------------------------------------------------------gtaaagtattttttcctttctttttcacatcttgtaattacttttgaacaagaacatccttatctcttccactgtaagttttaatgtatcccgacgtttgctttcttagGTTGTAATGAATACAAATGGCTATAGTCTTCCTGTTGATATATGGAGTTTGGGATGCACAATTCTTGAAATGGCAACATCAAAGCCTCCTTGGAATCAGT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G32510.1 (Glycine max), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctt--tttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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---------------------------------------------------------------------------gtaaaaaaaattttcttttcttctgcaatattgaaatttcttttaaaagtgagcatatttttctttcctcttccacttctttctcaccataattactggataatgatattctctt------ttttagGTTGTAATGAATACAAATGGCTATAGTCTTCCAGTTGATATATGGAGCTTGGGATGCACAATTATTGAAATGGCAACATCAAAACCTCCATGGAATCAGT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttcct--tgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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-------------------------------------------------------------------------gtaaattgttttttctattattctgc--aatattgaaatttcttttaaaagtgagcatattcttccctcctcttccacttctttctcaccatagttactggataatgatattctctt------ttttagGTTGTAATGAATACAAATGGCTATAGTCTTCCAGTTGATATATGGAGCTTGGGGTGCACAATTATTGAAATGGCAACATCAAAACCTCCCTGGAATCAGT
upper sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G53570.5 (Arabidopsis thaliana), 3'ss of exon 7
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
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----------------------------------------------------------------------------------gtagttctactattctaccttttttttttataacttttctctggcaagttgtgcagtggaaggccattatgttgttgcagctgatagaaaatcacatcatgcttccgttcttttccagGTTGTGATGAGCCAAAATGGCTACACTCATGCAGTCGATATCTGGAGTTTGGGTTGTACTATTCTGGAAATGGCAACATCAAAGCCACCTTGGAGCCAGTMapped 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|110698751|gb|EE076609.1|EE076609EST: CTTCTTCAATGCTCTCTTTCAAGGGAAGTCCCTATTGGATGGCGCCTGAG GTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTA
genomic: CTTCTTCAATGCTCTCTTTCAAGGGAAGTCCCTATTGGATGGCGCCTGAGgtatttacat ... ccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTA
EST:
gi|161719911|gb|FC068682.1|FC068682EST: CTTCTTCAATGCTCTCTTTCAAGGGAAGTCCCTATTGGATGGCGCCTGAG GTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTA
genomic: CTTCTTCAATGCTCTCTTTCAAGGGAAGTCCCTATTGGATGGCGCCTGAGgtatttacat ... ccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
ttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttacatacaacaccccacaccccacaccccaacaccccttctctctctctctctcacacacacacacatacacacaaaacaagtaaacacacagataaacatgcacactagcttcagttatgttctttttatttccttgcttcaatgttttttctccgtgaacaccaagtttccttgtgtttgtgtccaatctcagGTTGTAATGAATACAAATGGCTACAGCCTTGCGGTGGATATTTGGAGCTTAGGATGTACAATTCTTGAAATGGCAACATCAAAACCACCTTGGAGTCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG