Sequence
atgc intronic sequence ATGC exonic sequence...ttattctaaaaaactaccccttttttggttacctctagaatatgctatccctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA03G40000.1 (Glycine max), 3'ss of exon 12
ttattctaaaaaactacccc--ttttttggttacctctagaat--atgctatccctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
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--gttttcatgtgttttcataatgtgtaagttaccttgattatcactgatattcaaatggatagacaat-tgatacta-aattgattcttctttcaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATACACGTGGTATAGTTCTTGTAACTGCTACAACACGCCGTAATTCACCAAAT
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 12
-------ttattctaaaaaactaccccttttttggttacctctagaatatgctatccctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
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gtgtcatttgtggagaaatacaagatggcattttcatgtgttttcact--gatattcaaatggatagacaat-ttatactatatt----gattctttaaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA10G29770.1 (Glycine max), 3'ss of exon 13
ttattctaaaaaactaccccttttttggttacct--ctagaatatgctatc--cctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
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---tagcgaagagcctctgggtaatggggtacgaagtttatctctgttaggaacctagaaatggattagttga-gctgaaattagttgttcttaaaatatgcagTGCTTGCTGAATGGAAGCCCCCTGTTTATGATAATGAGCACGGCATAGTTCTTGTAACTGCTACAACACGCCGTAATTCCCCAAAT
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 12
ttattctaaaaaactaccccttttttggttacctctag-------aatatg-ctatccctatgtataggtttccttacacagcagt-tcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
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-------gtaaacctttcagctttatgagaacaaccagttgtgctaatatgattaccttggagtttggtttacatgaaagatttgtgttctttctttcaaataatgcagTGCTTGCCGAATGGAAGCCTCCGGTATATGACAATGAAGGTGGAATTGTGCTGGTGACTGCAACCACACGCCGCAATTCGCCTAAT
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 22
ttattctaaaaaactaccccttttttggttacctctagaatatgctatccctatgtataggtttccttacacagcagttcatgtctcttga-aaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
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-------gtaaagtttcagatttttctcttgcaagcatacaactaaactctgtggaatatggttttttgagtatta--tcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAACMapped 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|33401997|gb|CF207624.1|CF207624EST: TACTTCTGGAATGAGCCCGGCATTCAATCTCTATGGATGCACTCTAATTG TGCTTGCTGAATGGAAGCCACCTGTCTATGACAATACAAAGGGTATTACTC
genomic: TACTTCTGGAATGAGCCCGGCATTCAATCTCTATGGATGCACTCTAATTGgtaattttaa ... aaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTC
EST:
gi|161706689|gb|FC055067.1|FC055067EST: TACTTCTGGAATGAGCCCGGCATTCAATCTCTATGGATGCACTCTAATTG TGCTTGCTGAATGGAAGCCACCTGTCTATGACAATACAAAGGGTATTACTC
genomic: TACTTCTGGAATGAGCCCGGCATTCAATCTCTATGGATGCACTCTAATTGgtaattttaa ... aaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatccctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
tccttac putative branch site (score: 2)
ttgaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattctaaaaaactaccccttttttggttacctctagaatatgctatccctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT
- - - taaaaaa
- - - - - - - - ccccttt
- - - - - - - - - - - - - - - - - - - - - - ctatccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtc