Sequence
atgc intronic sequence ATGC exonic sequence...ctgcttaccgcttaagcattctgcccaattctgttttaacaaaaatattttttgatatttatggtagttctccattcttttgattttgatatggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G40080.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------------------ctgcttaccgcttaagcattctgcccaattctgttttaacaaaaatattttttg-atatttatggtagttctccattcttttgattttgatatggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTT
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gtataattgggttggatgcttgtatgtcccaataaaaaaaatggatttgctgtttgcttgctcgctattcctgtttcttcaacttgtgtttctcaacttgctattgtgtcttttttttgtcattcagatgaactagttatgttgcagcagtgttatgatacatccctgttgttggtatgtatgcagATGATTGTTATACTAACAAAGTCAGTAAACAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTT
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G29450.3 (Glycine max), 3'ss of exon 5
--------------------------------------------------------------------------------------------ctgcttaccgcttaagcattctgcccaattctgtt-ttaacaaaaatattttttgatatttatggtagttctccattcttttgattttgatatggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTT
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gtataactgagttggacttgagttggatgcttgtatgtcccaagaaaaatgatttgctgtttgcttgcttgctattcctgtttcttcagcttttgtttctcaacttgctattgtgtctttttttgtcattcagatgaactagttatgttgca-gcagttgtatgatatatccctgttgttgatatgtgtgcagATGATTGTTATACTAACAAAGTCAGTAAACAGATGTTTTGAGAAGAATCCGAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTT
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 5
ctgcttaccgcttaagcattctgcccaattctgttttaacaaaaatattttttgatatttatggtagttctccattcttttgattttgatatggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTT
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gtaaaaaatagtctgctgctctgtatcctttctttgtaacattttcatgtttgagtgagcggtttaaataaccaaaatgc-aatattggt---gatgcagATGATACTAATTTTAACAAAATCAATAGACAGATGTTTTGAAAAGAATGCAAAGTTCGATATGACACCCTTGCTTGGAGGGACAGATGCTGTCTTCTCATMapped 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|110699831|gb|EE077188.1|EE077188EST: AAGAGCCTTACGAGTCATTAAGAAGTCAGTTGGAGCTTATTTATGGTCAG ATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCA
genomic: AAGAGCCTTACGAGTCATTAAGAAGTCAGTTGGAGCTTATTTATGGTCAGgtagcattag ... atggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttttgatatttatggtagttctccattcttttgattttgatatggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTT
ttttgat putative branch site (score: 4)
ttttgattttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgcttaccgcttaagcattctgcccaattctgttttaacaaaaatattttttgatatttatggtagttctccattcttttgattttgatatggatgcagATGCTACTTATTCTGACAAAGTCAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-tgcttac
- - - - - -ttaagca
- - - - - - - - - -tctgccc
- - - - - - - - - - - - - - - - - - - - aaaaata