Sequence
atgc intronic sequence ATGC exonic sequence...atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
--------atggagaacctcacaat--tttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtc-ctat-----tatataatgcaataaaattt---tatct-tacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G07160.1 (Glycine max), 3'ss of exon 9
atggagaacctcac--aattttttattggtaaatctgatgt-ttgctaatttcagagct-gctatgagctcatcaagtctgaggagatttgaatatctgtg-cagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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-----tcactccattgaaccacccaatgatcatgttgctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaattaaattttatctaacagGAGGTGGATCCATGCGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCAACTGGACCTAAATCAGCACTGTTTGTTCCTGAA
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 9
atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagc-tgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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atatgtgattacccaatggtttatatggtgttgagttttaagcaattggcaaaatgtgctaattccttgccttat-tgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G32940.1 (Glycine max), 3'ss of exon 9
atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagc-tgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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atatgcgattacccaatcgtttatatggcgttgagttttaagcaattggcaaaatgtgctaattccttgccttat-tgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTAACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCATTGTTTGTTCCAGAA
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 9
----atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
| | |||| | || | | | | |||| | || | | ||||| || | || || | | || || ||||||||||||| ||||| || |||||||||| |||||||| ||||| || || ||||| || || |||| ||| ||| | |||| |||
ttttgttattgcttgtatggttttatggtgttgagttttatgt--gataggcaaaatg-tgctaattccttgccttgt-tgtgtaacttaatgctatcatgaagGAGGTGGATCCGTGTGAAGACCTGACTGATGACGACATTCGTACTGCCATACAAAATGCTACTGGACCTAAATCAGCAGTGTTTGCTCCATCT
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
---atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttg-aatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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gacattatccaaatggaaataatgtagta-tatttctgacgttg---agctcgtggatctctgtaaatttagactgattgaattccttcacattgcctcttcagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
---------atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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ctctgttgtatagagatctttacctactgatgttgtcag---tgctacttgataggggtttaatgattttaaactcatta-gtttctctcaatttg-----ctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 3'ss of exon 10
------atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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tgttgtatagagatctttacctactgatgttgtcag---tgctacttgataggggtttaatgattttaaactcatta-gtttctctcaatttg-----ctctgaaggagGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ15047 (Selaginella moellendorffii), 3'ss of exon 9
atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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---------------------------------------gtgcgttttttagttttgttatacgtccttctaac--------------atttttctacagGAGGTTGATCCATGTGATGATCTGACTGATGAAGATATACGAACAGCCATTCAAAATGCCACTGGTCCAAAAAATGTTCTGTTTGTGCCCGAG
upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ37641 (Selaginella moellendorffii), 3'ss of exon 9
atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
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---------------------------------------gtgcgttttttagttttgttatacgtccttctaac--------------atttttctacagGAGGTTGATCCATGTGACGATCTGACTGATGAAGATATCCGAACAGCCATTCAAAATGCCACTGGTCCAAAAAATGTTCTGTTTGTGCCCGAGMapped 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|122689415|gb|EC938921.1|EC938921EST: GAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAAGAGTCTGGAG GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATT
genomic: GAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAAGAGTCTGGAGgtgtgtattc ... atctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATT
EST:
gi|352764636|gb|FQ469711.1|FQ469711EST: GAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAAGAGTCTGGAG GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATT
genomic: GAGCACGCATTCACTATATTTTCCAATCCATCTTTGTGAAGAGTCTGGAGgtgtgtattc ... atctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
tgctaat putative branch site (score: 2)
atttgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA
- - - - cctcaca
- - - - - - - - - - - - - - - - - - tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcatca