Sequence
atgc intronic sequence ATGC exonic sequence...gctctgagcattttgatggagatattttgaattaaaacctattgctctacagcacatcatattaatttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g10110.1 (Oryza sativa), 3'ss of exon 4
gctctgagcattttgatggagatattttgaattaa--aacctattgctctacagcacatcatattaatttgggcctttttacccctttttgtttccatt-cagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
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---ttattcttcatgatgatggctctctgaatcaatgtagatattaggattctagaacttgcccaaaagtagtattttgtagctgatctgctattcattgcagGAGCTGTATGCAAAGCTAAATAGGATGGCCAGTATTGCGGCAGATATGTTTGTCGGCAGAGAAAGATTTGCTACTCTGCTAATGATGCGACTCACTGAGA
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G457534_T01 (Zea mays), 3'ss of exon 4
gctctgagcattttgatggagatattttgaattaaaacctattgctctacagcacatcatatta--atttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
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gattcttttgtcaaaatg-agctgtttttctttgcatggggcaagcatatcatagataacattatagtctttggatgaatgtcatctgctgtttat-tgcagGAACTGTATGCAAAGTTAAACAGGATGGCAAGCATTGCTGCAGAAATGTTTGTTGGTAGAGAAAGATTTGCTACTTTACTAATGATGCGCCTCACTGAGA
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G23840.1 (Glycine max), 3'ss of exon 5
-gctctgagcattttgatggagatatt--ttgaattaaaacctattgctctacagcacatcatattaatttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
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ttttttgctgaaattaatataaattgtcatctaacttca--ctgttgagttatgctacaa-atatgattcaagatctgattaggccattatgttattgtccagGAGCTTTTTGTAAAACTGAATCGAATGGCCAATATAGCAGCAGATATGTTTGTAGGGAGGGAAAGATTTGCTACGCTGCTCTTGATGAGACTTACAGAAA
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 6
-gctctgagcattttgatggagatatt--ttgaattaaaacctattgctctacagcacatcatattaatttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
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tcttttgctgaaattaatacaaattgtcatctaacttca--ctattgagttatactacaa-atatgattcaagatctgatgagaccattatgtttttgtccagGAGCTTTTTGTAAAACTGAACCGAATGGCCAATATAGCAGCAGATATGTTTGTGGGGAGGGAAAGATTTGCTACGCTGCTCTTGATGAGACTTACAGAAA
upper sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 4
-gctctgagcattttgatggagatattttgaattaaaacctattgctctacagcacatcatattaatttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
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tgtttgtcatagtctactgtccacttcaagaac-atgatttttttctgtcttttttagcttaatattcttatactttgggtgttgcgtcgttggaaaacagGAACTTTTTGCCAAACTTAACAGGATGGCAAGTCTAGCAGCAGATATGTTTGTAGGAAGAGAAAGATTCGCCATATCTTTGTTGATGCGATTAACAGAGAMapped 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|110700119|gb|EE077795.1|EE077795EST: TGGATGGAAATGCGGATGAGCTAGAATGGTTTCCATCCCCCATATTCCAG GAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTT
genomic: TGGATGGAAATGCGGATGAGCTAGAATGGTTTCCATCCCCCATATTCCAGgtattttgag ... ttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctacagcacatcatattaatttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
tattaat putative branch site (score: 2)
cctttttacccctttt putative PPT
acatcatattaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctctgagcattttgatggagatattttgaattaaaacctattgctctacagcacatcatattaatttgggcctttttacccctttttgtttccattcagGAACTTTTTACAAAGCTGAACAGGATGGCCAGCATAGCAGCAGACATGTTTGTAGGCAGGGAAAGATATGCTACATTGCTATTAATGCGACTCACTGAAA
- - - - - - -tgatgga
- - - - - - - - - - - - - - - - - aaaccta
- - - - - - - - - - - - - - - - - - - - - - ctctaca
- - - - - - - - - - - - - - - - - - - - - - - - - - cacatca