Sequence
atgc intronic sequence ATGC exonic sequence...ggagtgctttaaactgtagtttgggtgtagaaattcttgctgctgtataaataccttcagtaattctgctttgttgatatctggtttgaattaattgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G06890.1 (Glycine max), 3'ss of exon 5
ggagtgctttaaactgtagtttgggtgtagaaattcttgctgctgtataaataccttcagtaattctgctttgttgatatctggtttgaattaa--------ttgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
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-----ataattaatcatagct-agatatgaaaaggtataatatca-ataaa-acttgaagaggcttcactgctttaatctttaatttattttgaaatcatattcatagGTGAACATCAGAAGTGTCGATGAAGCTGTAGTGATTGGTGCTGCTCTCTCTCTGTCATCTTCTGCATTTGTTTTACAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 6
ggagtgctttaaactgtagtttgggtgtagaaattcttgctgctgtataaataccttcagtaattctgctttgttgatatctggtttgaattaa--------ttgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
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-----aattattgttattgct-agatatgaaaaggtataatatca-ataaa-accttaagaggcttcactgctttaatctttaatttatgttgaaatcatattcatagGTGAACATCAGAAGTGTTGATGAAGCTGTAGTGATTGGTGCTGCACTCTCTCTGTCTTCTTCTGCATTTGTTCTACAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------------------------------------------ggagtgctttaaactgtagtttgggtgtagaaatt-------cttgctgctgtataaataccttcagtaattctgctttgt--tgatatctggtttgaattaa-ttgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
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gtaaggtttttcacttggggtattatcatgattctcttgtcgtttttagtatcttttgtatcatgtatttcaaatttagcagacgcctcttttcccaatgtgatcatggtctaataactgtcaatctctgatgttttttgttgggctgttagagctatatcctaatatgatctataatttctgtaaaactctagGTCAACATTAGAAGCATTGATGAGGCCGTTGTCATTGGCGCTGCTCTATCATTGTCATCTTCAGCTTTTGTTCTACAG
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S16_337V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------------------------------------------------------ggagtgctttaaactgtagtttgg-gtgtagaaat--tcttgctgctgtataaataccttcagtaat-tctgctttgt---tgatatctggtttgaattaattgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
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gtaagaacatcttagcagaaatccaacgttgtatgacctaacttaaagacatgcagaattttcacttgatatctgcttgaggctttttctaatgctcttcaacatgtaaaactgacgttgctcacactcatgcttttccgttgacgcctgtcatgtgattgagatgttctctaccatatttgcagGTGAATATTAGAACGGTGGATGAAGCGGTGGTGATTGGTGCTGCTCTTTCGCTGTCGTCGTCAGCTTTTGTGCTGCAGMapped 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|161706912|gb|FC056800.1|FC056800EST: CTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATTTG GTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCA
genomic: CTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATTTGgtgagaaatc ... ttaattgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataaataccttcagtaattctgctttgttgatatctggtttgaattaattgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
aattaat putative branch site (score: 3)
tttgaattaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggagtgctttaaactgtagtttgggtgtagaaattcttgctgctgtataaataccttcagtaattctgctttgttgatatctggtttgaattaattgcagGTCAACATCAGAAGCGTCGATGAGGCTGTAGTGATTGGTGCTGCTCTTTCATTGTCTTCTTCAGCTTTTGTGTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - ttgggtg
- - - - - - - - - - - - - - agaaatt
- - - - - - - - - - - - - - - - - - - gctgctg
- - - - - - - - - - - - - - - - - - - - - - - - aaatacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg