Sequence
atgc intronic sequence ATGC exonic sequence...cctttttgcagtatatcttgcttattcttagcatgtttggatttggttatcttttatcccagttcttttacgagatctgttcactttctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os10g36870.1 (Oryza sativa), 3'ss of exon 9
-----------cctttttgcagtatatcttgcttattcttagcatgtttggatttggttatcttttatcccagttc-ttttacgagatctgt-tcactttctgtgcttgg-cagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
||| | | || || || | | | ||| | | | | | | | | | |||| | || | | ||| | || |||| ||||||||||||| ||| ||||||||||||||||||||||| ||||| || |||||||| | ||||| || | | | || || || |||||||| ||
gtacggccctatcttcccattggacatgtttctaaccataaacatatctttgctggact-tttgtgggcaaagttggctacactaaacttgtgttcattaacctgctcaatcagGTGTCAAACAATGGATGGGCAGAAGGTGAATGCAGAGGGAAAGCTGGCTGGTTCCCTTACGACTACATCGAGAAAAGGGACCGTGTGCTTGCAAGTAAAG
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os04g45670.1 (Oryza sativa), 3'ss of exon 9
----------------------------cctttttgcagtatatcttgcttattcttagcatgtt--tggatttggttatcttttatcccagttcttttacgagatctgt---tcactttctgtg--cttg-------gcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
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gtaatatacctctgctgtccatgttttgtaatcttcaattgagttgccgatattgttccgatgtttctaaatacaagttcctggcagctaacatatcataattgagctgtcagtaatctaatgtggtcttgtccgaacacagATATCAACCAATGGTTGGGCAGAAGGCGAATGCAAGGGAAAAGCAGGATGGTTCCCACATGGTTATATCGAAAGACGAGAGCGAGTTCTAGCTAGCAAGG
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G002859_T01 (Zea mays), 3'ss of exon 8
-------------------------------------------------------------------cctttttgca-gtatatcttgcttattcttagcatgtttggatttggtt--atcttttatcccagttcttttacgagatctgttcac---tttctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
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gtagtgctttcagatttctcttacacgtcatttacgaattgctcatgtagtcatgttatgctgcggccagcttcacacatattggttgcccatttcatgagtatctcaatcacatttcacattgtacccgaacttgattaccgaatttacataaaaaaccctttcctaatcagGTGTCGAACAATGGATGGGCCGAAGGTGAATGCAGGGGGAAAGCTGGTTGGTTCCCCTACGACTACATCGAGAAACGGGAGCGTGTGCTTGCAAGTAAAG
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G104166_T01 (Zea mays), 3'ss of exon 4
-cctttttgcagtatatcttgcttattcttagcatgtttggatttggttatcttttatcccagttcttttacgagatctgttcactttctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
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tgggttctgtaaaatga-ttaatcatttttgccagcagctccattaagaatgtgtatgatcatttggcctgcatttgtcctctcttttctctgaaacacagATCTCAAGCAATGGTTGGGCAGAAGGTGAATGCAAGGGCAAAGCAGGATGGTTCCCTCATGCTTATATCGAAAGGCAGGAACGTGTTCTAGCAAGCAAAG
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G01120.2 (Glycine max), 3'ss of exon 9
cctttttgcagtatatcttgcttattcttagcatgtttggatttggttatcttttatcccagttcttttacgagatctgttcacttt--ctgtgcttgg-------cagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
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---------aaaacaaacttttggttgtggtgatagtgggaacggattaccttaaaatcattacatattctaaattgttcccaatatgactctgattgaattgacacagGTGACAAACAATGGATGGGCTGAGGGTGAATGCAAAGGGAAAGCAGGTTGGTTTCCATTTGGTTACATAGAAAGAAGGGAGCGAGTCCTCGCAAGCAAGG
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G01100.2 (Glycine max), 3'ss of exon 9
cctttttgcagtatatcttgcttattcttagcatgtttggatttggttatcttttatcccagttc-ttttacgagatctgttcacttt--ctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
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catatttaaaacaaacttt---tggttgtggtggtagtggggatggataaccctaaaatcattacatattttaaattgttcccaatatgactctgattggcagGTGACAAACAATGGATGGGCTGAGGGTGAATGCAAAGGGAAAGCAGGTTGGTTTCCATTTGGTTACATTGAAAGAAGGGAGCGAGTCCTCGCAAGCAAGG
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 9
-------------------cctttttgcagtatatcttgcttattcttagcatgtttggatttggttat-cttttatccca----gttcttttacgagatctgttcactttctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
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gttcgatagtaaaccaactcccacatg-agaaaaaccaacaaagtctcctttaattcatattaaccaatacggttattcagtagtgtttgtttgatataccacttctctatttgtcattgccagGTTACAGGCAGTGGATGGGCCGAAGGTGAATGCAAAGGCAAAGCTGGTTGGTTCCCTTATGGGTACATTGAAAGACGGGAACGAGTTCTTGCTAGCAAAGMapped 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|110386676|gb|EC951292.1|EC951292EST: CTGATGTGGAGTTGAATTTGTCAGTTGGTGATCATGTTGTGATACGAAAG GTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGG
genomic: CTGATGTGGAGTTGAATTTGTCAGTTGGTGATCATGTTGTGATCCGAAAGgtttttcacc ... tgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttatcttttatcccagttcttttacgagatctgttcactttctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
ctttctgt CT-rich tract
ttctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctttttgcagtatatcttgcttattcttagcatgtttggatttggttatcttttatcccagttcttttacgagatctgttcactttctgtgcttggcagGTGTCAAACAGTGGCTGGGCAGAAGGTGAATGCAGAGGAAAAGCAGGTTGGTTCCCAGTTGGATACATAGAAAGACGAGAACGCGTTCTTGCAAGCAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - tgcagta
- - - - - - - - cttgctt
- - - - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttctg