Sequence
atgc intronic sequence ATGC exonic sequencegtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATGCAAAACACTATATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 5
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATGCAAAACACTATATAG
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------------------------------------------------------------------------gtaagaa-ttacttcatcccttatcttccacacatata--aatcaattttat--taaattctccaaatt-------ctggcagCTGTCTATGTGGCGATGCAATGATGAGCTTCGGGCACGAGCAGATGAGCTGCATCTCTCCTCAAAGAAAGATGCAAAGCACTATATAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G473001_T02 (Zea mays), 3'ss of exon 4
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaat---tttgctttgttattttca----ttggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATGCAAAACACTATATAG
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-----------------------------------------------------------------------------gtgtctattactttaataatcagaatatagttcataacatcatttatatcagaggattggagttgatagattgaaatgcttgcagTTGTCTATGTGGCGATGCAGTGATGAACTGCGCATGCGAGCTGATGTGCTGCATCTCTCCACTAAGAAGGATGCCAAACATTACATAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 5
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATG------CAAAACACTATATAG
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----------------------------------------------gtaatccatagctc-tggcatgttcataaaatgatcattg--tggatggtttattactcttga-------atcattttgctgatttcccttc-ttgtttctgt----agCTCTCTATGTGGCGCTGCAATGATGAACTACGCGTTCGTGCAGAAGAACTTCACAGGTCTTCCAAGAAAGATGAAGTTGCAAAACACTATATAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 6
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATG------CAAAACACTATATAG
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----------------------------------------------gtaatccatagctc-tggcatacttttaaaatgatcatcg--tggattgttaattactcttga-------atcattttgctgatttcccttc-ttatttctgt----agCTCTCTATGTGGCGCTGCAATGATGAACTACGCGTTCGTGCAGAAGAACTTCACAGGTCTTCCAAGAAAGATGAAGTTGCAAAGCACTATATAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 5
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGAT------GCAAAACACTATATAG
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------------------------------------------------------------gtaattaatagctctacaaatcttttaaaatgatctttgttgttggt-taattattaaaatgacactgatttctctcccatgttgtttctg-tagCTGTCAATGTGGCGCTGCAATGATGAGCTACGTGTTCGTGCAGATGAACTTAACAGGTCTTCCAAGAAAAATTCAGTGGCAAAACACTACATAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 6
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGAT------GCAAAACACTATATAG
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------------------------------------------------------------gtaattgatgactctagaaatcttttaaaatgatctttgttgt--tggtt--aattacaatggcactgatttc-ccatgttgtttctgt----agCTGTCAATGTGGCGCTGCAATGACGAGCTACGTGTCCGTGCAGATGAACTTAACAGGTCTTCCAAGAAAAATTCAGTCGCAAAACACTACATAGMapped 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|110699775|gb|EE077068.1|EE077068EST: TGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTTTGAG TTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTC
genomic: TGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTTTGAGgtatatatta ... tcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATGCAAAACACTATATAG
tgctaat putative branch site (score: 2)
ttattttc putative PPT
tattatgctaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagTTGTCTATGTGGCGATGCAATGACGAACTTCGTGTTCGTGCAGATGAACTCCTCAGATCTTCAAAGAAAGATGCAAAACACTATATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG