Sequence
atgc intronic sequence ATGC exonic sequence...tagataggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagactatactttcttaagtttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G069816_T01 (Zea mays), 3'ss of exon 3
---tagata-ggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagactatactttcttaagtttc--tggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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ctgtcaacatgatcttctattatatcaa--catgatcttctattctgtcaac-atgatcaatga---tgttttttcctaaatcctaatgaacttcctctctcttagGTTGTTGATTGCAGAATTTGTGGTGATCCCCACTCAGTTCTTAGGTTTGCATTTATTGAGTTCTCTGATGAAG
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G051043_T01 (Zea mays), 3'ss of exon 3
tagataggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagactata------ctttcttaagt--ttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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------agtttattaagtgatcatgttt--actggtctattctgtcaacatgaacaaatgaacaatggtgtttttttcctaaatcataatgaactttctctctgttagGTTGTTGATTGCAGAATTTGTGGTGATCCCCACTCAGTTCTTAGGTTTGCATTCATTGAGTTCTCTGATGAAG
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G814159_T01 (Zea mays), 3'ss of exon 3
tagataggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagactatactttcttaagtttctggaatgcttattt--tgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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cactgcagtttcaaaatggttcacaatgtgggc-gat-gttgtgtggttacattttatctttctatgtttgacttactacgacacatctttttcacatgtagGTGGTAGATTGCCGTATCTGTGGTGATCCTAACTCAGTGCTTCGTTTTGCTTTTATCGAGTTTGCTGATGACG
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G18810.1 (Glycine max), 3'ss of exon 3
---tagataggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagacta--tactttcttaagtttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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ctctagctgaatatc---taggatttaaatttg-taagataagtctttcattatgact-attaccctacttaggtagtaatgatatttactgatttgaattgaagGTAATTGATTGCCGAATTTGTGGTGATCCACATTCAGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGT
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G40060.1 (Glycine max), 3'ss of exon 3
---tagataggttttacacaaaattgagttttaacttgatagttg-gtttgttgtggttgatgagactatactttcttaagtttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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ggctgaatatctaggatttaaatttgaaagataaatcttttgttatgattattacc-ctacttaggcagtaatgatat---ttattgtgtcatttgaattgaagGTAATTGATTGCCGAATTTGTGGTGATCCACATTCTGTTCTCCGTTTTGCTTTTGTTGAGTTTGCAGATGAGT
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G53650.2 (Arabidopsis thaliana), 3'ss of exon 3
tagataggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagactatactttcttaagtttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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--------------------gtaagttgaaatctataagct---ttgttaccggttttcatcttttgtttgttaattaatattacattcttcttctgaagGTTGTTGATTGTCGAATCTGCGGGGATCCGAATTCAGTTCTTCGCTTTGCGTTTGTTGAGTTTTCTGATGACC
upper sequence: Vv19s0176g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G14450.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------tagataggttttacacaaaa--ttgagttttaacttgatagttggtttgt--------tgtggttgatgagactatactttc---------ttaagtttctggaatg-------------cttattttg--aagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
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gtaagatgatccttaaaatctttaaatgttggttatatctttctatttcatgtgttttggacaatgtgttaaatttagactagtttttgagtccgtgccaaaggttctgttgaaaaaatgttactttggtggtatagttgtgtgtgtgaagtaacgttaagttcttcttcttttgtgaagGTTGTTGACTGTAGAATTTGTGGCGATCCACATTCGGTTCTTCGATTTGCGTTTGTTGAGTTTGCTGATGACCMapped 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|110379205|gb|EC944385.1|EC944385EST: GTCACTGAGGAGCGGCTTGCTGCCTTATTTAGTAGCTGTGGACAA GTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCA
genomic: GTCACTGAGGAGCGGCTTGCTGCCTTATTTAGTAGCTGTGGACAAgtaagttact ... tattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgtggttgatgagactatactttcttaagtttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
ggttgat putative branch site (score: 5)
cttatttt putative PPT
ttattttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagataggttttacacaaaattgagttttaacttgatagttggtttgttgtggttgatgagactatactttcttaagtttctggaatgcttattttgaagGTTGTTGATTGTCGAGTTTGTGGTGATCCGCATTCAGTTCTTCGTTTTGCATTTGTGGAGTTTGCTGATGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - acaaaat
- - - - - - - - - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - -gtggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgct