Sequence
atgc intronic sequence ATGC exonic sequence...cttatgcctgtgcaaggcaattcaaaactttcttagcaaaagagtttctctaatctattcctattttttaacttgtatagttgttatatttttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g43930.3 (Oryza sativa), 3'ss of exon 2
cttatgcctgtgca-aggcaattcaaaactttcttagcaaaagagtttctctaatctattcctattttttaacttgtatagttgttatatttttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
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-----gtctggggacaaacagttctatatttgtctactcttgaactgt---tggtttggt----ttggttgacgttt-tactttttatggcttggt--cagTTTAAAGAATTGGCTCAAGCTTACGAGGTTCTTAATGATCCTGAAAAGAGGGAAATCTATGACCAATATGGCGAGGATGCACTCAAAGAAGGAATGGGAG
upper sequence: Vv15s0021g02090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G118731_T01 (Zea mays), 3'ss of exon 2
-cttatgcctgtgcaaggcaattc---aaaactttcttagcaaaagagtttctctaatctattcctattttttaacttgtatagttgttatatttttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
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gtttgt-tctgtccacatttgttctgtaatattagcttagtatgtgcaattgt---aggtgttctcatcgccaggttttccttgatgatgaactt----ggcagTTTAAAGAGCTGTCTCAAGCTTATGATGTTCTTAGTGACCCGGAGAAGAGGGAGATCTATGACCAGTATGGAGAAGATGCCCTTAAGGAAGGAATGGGAG
upper sequence: Vv15s0021g02090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G14540.2 (Glycine max), 3'ss of exon 2
cttatgcctgtgcaaggcaattcaaaactttcttagcaaaagagtttctctaatctattcctattttttaacttgtatagttgttat---atttttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
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---atgttcactcgctaactttttatgattgaaaaactgctaagttttcttactgctactgcatttttctgttttaatactaaatatctgattcatatatcagTTCAAGGAGTTAGGTCAAGCATATGAAGTTTTAAGTGATCCTGAGAAGAAAGACCTGTATGACCAGTATGGTGAAGATGCCCTTAAAGAAGGAATGGGGG
upper sequence: Vv15s0021g02090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S342_16V6.2 (Physcomitrella patens), 3'ss of exon 1
cttatgcctg--tgcaaggcaattcaaaactttcttagcaaaagagtttctctaatctattcctattttttaacttgtatagttgttatatttttgtat-cagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
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tgtagacatggctgcaagctcgtgtactgtggtatgagagagggacttgaact--tgggatttaattctctggagggctgagacgtt-tatgtatgcttgcagTTTAAGGAACTTGCTCAGGCTTACGAAGTTTTGAGTGATCCTGAGAAGCGTGATATATATGATCAATATGGTGAAGATGCACTTAAAGAAGGAATGGGTGMapped 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|71858916|gb|DT007971.1|DT007971EST: AAAAGGCTGCCATAAAGAACCACCCAGACAAGGGTGGAGACCCGGAGAAG TTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGA
genomic: AAAAGGCTGCCATAAAGAACCACCCAGACAAGGGTGGAGACCCGGAGAAGgtaaatcctt ... tttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctaatctattcctattttttaacttgtatagttgttatatttttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
ttttaac putative branch site (score: 2)
tattttt putative PPT
tattttttaacttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatgcctgtgcaaggcaattcaaaactttcttagcaaaagagtttctctaatctattcctattttttaacttgtatagttgttatatttttgtatcagTTCAAGGAGTTGTCTCAAGCTTATGATGTTCTTAGCGATCCAGATAAAAGAGAAATCTATGACCAATATGGTGAAGATGGGCTTAAAGAGGGAATGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - tgcctgt
- - - - - - caaggca
- - - - - - - - - - - caaaact
- - - - - - - - - - - - - - - - - - -aaaagag