Sequence
atgc intronic sequence ATGC exonic sequence...ccttttgaaattacatgttgcactgattgatattttattcaagttttgaacaattttattctctttctttttctttaacatgtgaattattctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGATGAACCAAGAGTAAACAAGATCGTGTTCATAGGGAAGAACTTAGATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 9
-------------------------------------------ccttttgaaattacatgttgcactgattgatattttattca-------------agttttgaacaattttattctctttctttttctt----taacatgtgaattattctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGATGAACCAAGAGTAAACAAGATCGTGTTCATAGGGAAGAACTTAGATGGAA
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gtaagtttaaattccttaaaaatttccacgtctcgtctatttattgtttgttattatccatcaatcaggtgaacattttctctcctttgcccacatcgattctgactatcattgtttatgttcagtttcgtagaattaaacatagttttttctgtaacagGGAGTTCATGACATATTTCAAGGTTCACCTGAAAGGTTGTGGGGGCCAGATGAACCAAGGGTAAACAAAATTGTATTCATAGGGAAAAACTTGGATGCTA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G38450.1 (Glycine max), 3'ss of exon 9
-----------------------------------------------------ccttttgaaattacatgttgcactgatt-gatatt-ttattca--------agttttgaacaattttattctctttctttttctt----taacatgtgaattattctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGATGAACCAAGAGTAAACAAGATCGTGTTCATAGGGAAGAACTTAGATGGAA
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gtaagtctatattcctttaccatggggttgccacacggatctttaaagaattccctaaaaaaatttcatgtctcggcaatttgttgttgttattagcccacatcaactctgactaccattgtttatgttcagtttcgcggaattaaacatagttttttatgtaacagGGAGTTCATGACATGTTTCAAGGTTCACCTGAAAGGTTGTGGGGGCCAGATGAACCAAGGATAAACAAAATTGTATTCATAGGGAAAAAATTGGATGCTA
upper sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G15730.1 (Arabidopsis thaliana), 3'ss of exon 9
ccttttgaaattacatgttgcactgattgatattttattcaagttttgaacaattttattctctttct-----ttttctttaaca--tgtgaattatt----ctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGATGAACCAAGAGTAAACAAGATCGTGTTCATAGGGAAGAACTTAGATGGAA
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gtgaccaacctttgtcattattttgatc---atttcggatgaattctaaagcatcgaagccttgggatgtaaattatctctgacgtttgtggtttataatggttggaacagGGAGTTCATGAAATATTTGAAGGATCACCTGACCGGTTATGGAGAAAAGATGAAACAAGAACCAACAAGATTGTTTTCATCGGCAAGAATTTGAACCGGGMapped 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|32456847|gb|CD798021.1|CD798021EST: TGAAAGGTCTCCTTTCTGTTCAGGGTATGGATGAGAGGTTTGTCTTTCAG GGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGAT
genomic: TGAAAGGTCTCCTTTCTGTTCAGGGTATGGATGAGAGGTTTGTCTTTCAGgtgggtttga ... tctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaacaattttattctctttctttttctttaacatgtgaattattctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGATGAACCAAGAGTAAACAAGATCGTGTTCATAGGGAAGAACTTAGATGGAA
ctttaac putative branch site (score: 3)
ttattct putative PPT
aattttattctctttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttttgaaattacatgttgcactgattgatattttattcaagttttgaacaattttattctctttctttttctttaacatgtgaattattctataacagGGAGTTCATGATATATTCCAAGGTTCACCTGATCGGTTATGGGGCCCAGATGAACCAAGAGTAAACAAGATCGTGTTCATAGGGAAGAACTTAGATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
ccttttg
- - - - - - acatgtt
- - - - - - - - - - - ctgattg