Sequence
atgc intronic sequence ATGC exonic sequencegtaaattaatatattttttattgcctcaattacttttcaaagctaaattgaatcgcaagagttaggggtttgctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g31260.1 (Oryza sativa), 3'ss of exon 3
gtaaattaatatattttttattgcctcaattacttttcaaagctaaattgaatcgcaagagttaggggtttgctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
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-------------------------------gtcaccaactgctaaactg--ttgcatt--tta----tatggtgaagatgcatgtatggcccttttcctcatgtattgatgcttggtttttacagTGTGCATATAATTCTGCAAAGTCTAAGAACAGATTTCACTTTTGGGGAAGCCATTGGAGGCATGGAGATGCATTACTTTTTTCACTTGCGTCTGCCCAG
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G175799_T02 (Zea mays), 3'ss of exon 3
gtaaattaatatattttttattgcctcaattacttttcaaagctaaattgaatcgcaagagttaggggtttgctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
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-------------gtcattaacagctaaacagtttgttcata-tggagaaaatggatagaactatagaag-accaattatac--atgaagtattgattcattactgcttaatattgc-------agTGTGCATATAATTCTGCAAAATCTAAGAACAAATTTCATTTTTGGGGAAGCCATTGGAGACATGGAGATGCATTGCTTTTTTCATTAGCATGTGCCCAG
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G33510.1 (Glycine max), 3'ss of exon 3
gtaaattaatatattttttattgcctcaattacttttca--aagctaaattgaatcgcaagagttaggggtttgctggtc--atgctaatagggttcctttttctttttcctttttcctcccct-catcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
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-----gtatttgaaagtgcatccccaaaatgatttctgagcaatatgatttacatggatgtatttaatgcttttttagtctcttgaaaatgatctgcatctgccaggctaatacatattcttgtatatcagTGTGCTTATAATTCTGCAAAATCTAAGAACAAGTTTCACCTTTGGGGGAGTCATTGGAGACATGGAGATTCATTGCTGTTTGCCCTTGCTTGTGCACAG
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G34070.1 (Glycine max), 3'ss of exon 3
gtaaattaatatattttttattgcctcaattacttttcaaagcta-aattgaatcgcaagagttaggggtttgctggtcatgctaatagggttcctttttctt----tttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
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-----gtattcgaaagtgcatccccaaaatgatttctgagcgatatgacttacatttatgtatttaatgcattttagcctcttgaaaatcatctgcatctgctaggctaatacatattctttatataccagTGTGCTTATAATTCTGCAAAATCTAAAAACAAGTTTCACCTTTGGGGGAGTCATTGGAGACATGGAGATTCATTGCTGTTTGCCCTTGCTTGTGCACAG
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G51150.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaattaatatattttttattgcctcaattacttttcaaagctaaattgaatcgcaagagttaggggtttgctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
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-----------------------------gtacatctaatggtcatagt-attgtctgtcgtacagagtaatatcaccacacagat---gtttttttcggagtctgattttttctcttattaatagGCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAG
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S139_13V6.2 (Physcomitrella patens), 3'ss of exon 4
gtaaattaatatattttttattgcctcaattacttttcaaagctaaattgaatcgcaagagtta----ggggtttgctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
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------------------------------aaggttcatatgctagaagatatgtgaaggttttctttgcaatgtgatataccttcagaggatattttcatctgtattctcggcaacttgccatgtgcagTGTGCGTACAATTCTGCGAAGGCTAAAAATAAGTTTCACTTCTGGGGTAGTAAATGGAGTCACGGCGATACATTATTGTTCAGCTTAGCATCTGCTCAGMapped 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|294965652|gb|GW837251.1|GW837251EST: CTAGTAGGAGACGTACACTTGCTTTATATCTTGCAGCTAGGCTTGCCCAG TGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGC
genomic: CTAGTAGGAGACGTACACTTGCTTTATATCTTGCAGCTAGGCTTGCCCAGgtaaattaat ... ccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
tgctaat putative branch site (score: 2)
tagggttcctttttct CT-rich tract
tttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattaatatattttttattgcctcaattacttttcaaagctaaattgaatcgcaagagttaggggtttgctggtcatgctaatagggttcctttttctttttcctttttcctcccctcatcagTGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT