Sequence
atgc intronic sequence ATGC exonic sequence...cttaatcattttctgactaatttttggttgaggagtccaagttttgcatgtacaggatagatttttgtatctttttatttatgttaatttatgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g60460.1 (Oryza sativa), 3'ss of exon 1
-cttaa--tcattttctgactaatttttggttgaggagtccaagttttgcatgtacaggatagatttttgtatctttttatttatgtta--atttatgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
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gtttgacatcctctttgtcccaactgttagaaatgaggcaca-----cgcgttcaactaaaactctcttgctgtcatgtaaccatactattgttttcgcgcacagGGTTTCACAACATATGCGGAGCGGAGGATTGTTGAGGTGGTGCAAGGGGAGGAGCGGGCAGCCTTAAACATGGGAATTGGATGGCGGGGTTTGAACAGAA
upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G155580_T03 (Zea mays), 3'ss of exon 1
cttaatcattttctgactaatttttggttgaggagtccaagttttgcatgtacaggatagatttttgtat---cttttta--tttatgttaatttatgtt--tccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
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----atgatgctgtttatcatgcctaagtgcctaac---aacttaatatgtatattgtatacttgtatattgacattttagtctcatattgttgtcacttgatacagGGATTCACAACATATGCTGAGAGGAGGATTGTTGAGGTTGTGCAAGGGGAGGAGCGGGCAGCCTTAAACATGGGGATTGGATGGAGGGGATTGAACAGGA
upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G38780.1 (Glycine max), 3'ss of exon 1
cttaatcattttctgactaatttttggttgaggagtccaagttttgcatgtacaggatagatttttgt-atctttttatttatgttaatttatgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
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----------------------------gtaatattctcctactagtgcgttttgatttgatggcgatcatgagattgttgttcttgattt-tggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAACAAAGAGCCGCGTTGAATATTGGAATCGGTTGGAGGGGTTTGAATGAGG
upper sequence: Vv13s0067g03300.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G13520.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------cttaatcattttctgacta-atttttggttgaggagtccaagttttgcatgtacaggatagatttttg-tatctttttatttatgtta-atttatgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
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gtagctttgaattgtcttgtgcttttgcttcttttagctacaaattaggatgtgtaactgtgtgtccgtttttagagtttgccttgttgatgggaaagtgtttatttcatgttcatggcaatagGGATTTACAACTTACGCAGAGAGGAGAATTGTGGAGGTTGTTCAAGGGGCGGATATAGCTACTTTGAACATTGGCATTGGTTGGAGGGGTTTAACTGATGMapped 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|29782758|gb|CB348337.2|CB348337EST: TGATCACCAACAAGAATAATGAACATTTTTGGTTGAATGAG GGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAG
genomic: TGATCACCAACAAGAATAATGAACATTTTTGGTTGAATGAGgtataacata ... atgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgtacaggatagatttttgtatctttttatttatgttaatttatgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
tgttaat putative branch site (score: 3)
tgtttcc putative PPT
atagatttttgtatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttaatcattttctgactaatttttggttgaggagtccaagttttgcatgtacaggatagatttttgtatctttttatttatgttaatttatgtttccagGGTTTTACAACTTATGCAGAGCGGAGAATTGTTGAGGCTGTGCAAGGGGAGGATAGGGCTGCTCTGAATATTGGAATTGGTTGGAGGGGATTGAATGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - ttctgac
- - - - - - - - - - - - tggttga
- - - - - - - - - - - - - - - - - - ccaagtt
- - - - - - - - - - - - - - - - - - - - - - -gcatgta