Sequence
atgc intronic sequence ATGC exonic sequence...ttcatctgaacaatgtttttatattgtggttttatcgggatcattatacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g00480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os06g06880.1 (Oryza sativa), 3'ss of exon 1
ttcatctgaacaatgtttttatattgtggttttatcgggat-cattatacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
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-acgctaaaacttcttgttctaactataaacaatttgtaacatgttgtagaatgtgattgcatcatgcttaccatcattctgcctacttactcattgacagGAGATATCCATGGCCAGTATTCTGATCTTCTTCGGTTATTTGAGTATGGGGGCTTCCCACCAGAGGCAAACTACTTGTTTCTAGGTGATTATGTTGACCG
upper sequence: Vv02s0025g00480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G016930_T01 (Zea mays), 3'ss of exon 1
-ttcatctgaacaat-gtttttatattgtggttttatcggg-atcattatacat-tattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
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agtaaccttgatgttagtgcatgctttgtaaactcgtcaattaacaaaatggatgcattaatgtggataa-tgataatcattta-actt--ctttactatgcagGGGATGTCCATGGTCAGTATTCAGACCTTCTTCGATTATTTGAGTATGGTGGCTATCCACCAGATGCAAATTATCTGTTCCTCGGTGACTATGTTGATAG
upper sequence: Vv02s0025g00480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G041822_T02 (Zea mays), 3'ss of exon 1
ttcatctgaacaatgtttttata-ttgtggttttatcgggatcattatacattattg-gtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
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-atgttagtgcatgctctgtaaacttgtcaactaacaatttgcgatgtacattgatgcatattgtgga-taacgataaccatttaacttctttgctatgcagGGGATGTCCATGGCCAGTATTCAGACCTCCTTCGATTATTTGAGTATGGTGGCTATCCACCAGATGCAAATTATCTGTTCCTGGGTGACTATGTTGATCG
upper sequence: Vv02s0025g00480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G37370.1 (Glycine max), 3'ss of exon 1
--ttcatctgaacaatgt-ttttatattgtggttttatcgggatcattatacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
| || | || ||| || || || |||| | | || | | | || | | | | | ||||| | ||| || |||||||||||||||| || | || |||||| |||| ||||| || || || || |||||||| |||||||| |||||||| || ||||| |||||||||||
ctagaacctttaggttgcctttcattttttgattttgacca---ccttgttcttgatggatgttaaatagtggatggcatttgttttaataattcatttgcagGAGATGTTCATGGCCAATACTCAGATCTTTTAAGGTTGTTCGAATATGGGGGATACCCACCTGAAGCAAATTATTTATTTCTCGGAGATTATGTTGATCG
upper sequence: Vv02s0025g00480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G02180.1 (Glycine max), 3'ss of exon 1
-----ttcatctgaacaatgtttttatattgtggttttatcgggatcattatacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
| || || || ||| | ||| |||| || | | | || | | | | | | ||||| | ||| || |||||||||||||||| || | || |||||| |||| |||| || || || || ||||| || |||||||| |||||||| || ||||| |||||||||||
gggctagaaccttaaggttgccttttttttgc--ttttgtccaccttggttt---cgatggatgtcaagtagtggatggcatttgttttaataattcatttgcagGAGATGTTCATGGCCAATACTCAGATCTTTTAAGGCTGTTCGAATATGGGGGATACCCGCCTGAAGCAAATTATTTATTTCTCGGAGATTATGTTGATCG
upper sequence: Vv02s0025g00480.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G64040.1 (Arabidopsis thaliana), 3'ss of exon 1
-ttcatctga-acaatgtttttatattgtggttttatcgggatcattatacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
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cttcattttatagcaaccagtagtagcatatgcttgtgtggcttgtgtttc--tagtgaaatagcacttctataatgggggttggtttcatgtttttaatagGAGATACTCATGGTCAGTTCTCAGATCTTTTGAGATTGTTCGAGTATGGTGGCTACCCACCAGCTGCAAACTATTTGTTTCTTGGGGATTATGTAGATCGMapped 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|294965965|gb|GW839304.1|GW839304EST: CCTAAGCCAGCCGAATCTTCTTGAGCTTGAAGCGCCGATAAAGATTTGTG GAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTG
genomic: CCTAAGCCAGCCGAATCTTCTTGAGCTTGAAGCGCCGATAAAGATTTGTGgtaaaatcat ... tgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTG
EST:
gi|34545472|gb|CF513704.1|CF513704EST: CCTAAGCCAGCCGAATCTTCTTGAGCTTGAAGCGCCGATAAAGATTTGTG GAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTG
genomic: CCTAAGCCAGCCGAATCTTCTTGAGCTTGAAGCGCCGATAAAGATTTGTGgtaaaatcat ... tgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
aactaac putative branch site (score: 1)
taacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcatctgaacaatgtttttatattgtggttttatcgggatcattatacattattggtttggtgaactaacaatggtttgtactttgcattgcattacagGAGATGTTCATGGTCAGTTTTCTGATCTTCTAAGATTGTTTGAGTACGGTGGGTACCCACCAGAAGCAAACTATTTATTCCTAGGAGACTATGTTGATCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - caatgtt
- - - - - - - - - - - -ttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttgca