Sequence
atgc intronic sequence ATGC exonic sequence...ctctctctctctccccttgttcaacatgcatgtgggtatgtataggaggatgtgtatgaaggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G04110.2 (Glycine max), 3'ss of exon 6
ctctctctctctccccttgttcaacatgcatgtgggtatgtataggaggatgtgtatgaa---ggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG-------------------------------------------------------
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---agcatctttcttcttcttgcatgtgcgccagaatgcatactaattaatgggtaataatgtggtactaattgagtgatgatttgtaattgtttaatgttagGTTCAAGGAGAGAAGAATTGTATATTCCCTGAAGACCCCGGTCAGGTATGCTTTTTCCTTGGATCCACTAATTAACCCCTTAAAGGGATACGTTTGGGGA
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G04110.1 (Glycine max), 3'ss of exon 6
ctctctctctctccccttgttcaacatgcatgtgggtatgtataggaggatgtgtatgaa---ggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
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---agcatctttcttcttcttgcatgtgcgccagaatgcatactaattaatgggtaataatgtggtactaattgagtgatgatttgtaattgtttaatgttagGTTCAAGGAGAGAAGAATTGTATATTCCCTGAAGACCCCGGTCAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G35610.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------ctctctctctctccccttgttcaacatgcatgtgggtatgtataggaggatgtgtatgaa------ggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
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gttagcacacaacacacatacatatataaagccgtttctcacttcctaaagcaatgagtctagctttctccctccagcagcatctttcttcttcttgcatgtgtgcgccagaatatatactaattaatgggtaataatgtggtactgattgagagatggttaatgttagGTTCAAGGAGAGAACAATTGTATATTCCCTGAAGACCCCGGTCAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G09180.3 (Glycine max), 3'ss of exon 5
-ctctctctctctcccct-tgttcaacatgcatgtgggtatgtataggaggatgtgtatgaaggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
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cctttctgcatctttcttctctttcatgtgcacgagggtactaattaatgggtaattatgt-gatagtaattgagtgatgattgtaa-ctatttaatgctagGTTCAAGGAGAGAAGACTTGTATATTCCCTGAAGACCCCGGTCAG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G09180.2 (Glycine max), 3'ss of exon 6
ctctctctctctccccttgttcaacatgcatgtgggtatgtataggaggatgtgtatgaaggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
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----gcatctttcttctctttca-tgtgcacgagggtactaattaatgggtaattatgt-gatagtaattgagtgatgattgtaa-ctatttaatgctaggttcaagGAGAGAAGACTTGTATATTCCCTGAAGACCCCGGTCAGMapped 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|71871899|gb|DT020954.1|DT020954EST: TACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA GTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
genomic: TACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCAgtaagaaatt ... ttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaggatgtgtatgaaggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
aattgat putative branch site (score: 4)
ttttttcat putative PPT
ttaattgatcaatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctctctctctccccttgttcaacatgcatgtgggtatgtataggaggatgtgtatgaaggccttaattgatcaatgattataaattttttcatgttagGTTCAAGGGGAGAGGAATTGTATATTTCCTGAAGACCCTGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
ctctctc
- - - - ctctccc
- - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - ggtatgt
- - - - - - - - - - - - - - - - - - - - - - - -ggatgtg