Sequence
atgc intronic sequence ATGC exonic sequencegtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 3'ss of exon 4
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattcatatgttagttta-cacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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-------------------------------------------------------------------------------------atgtatatgtagaaactagcccctcttaagct---gtataatgtgagtgttgggtttccttttctttattattgaaatataataacatgatgctctttaacagAAGGTATTTTGGAGGGGTGTTGTTGAAGAACTCCTGTGGTTCATCAGTGGCTCGACAAGTGCAAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g26060.1 (Oryza sativa), 3'ss of exon 3
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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------------------------------------------------------------------------------------cccttgtgtatttactaatcctcaaacagcataacatttatttttatttattatcctggactacttttgaaaagtgaaatgttctctttgc---ctttaccagAGGGTATTTTGGCGTGGTGTTCTTGAAGAGCTATTGTGGTTCATTAGTGGCTCAACAAATGCAAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G005990_T01 (Zea mays), 3'ss of exon 4
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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-------------------------------------------------------------------------ccaatccaaagtccaa--------aataaagtttgaagaactattatatgttaccatatatttagctaccaattctt-tattaatggaacaacatgtgct-----ctttaacagAGGGTATTTTGGCGTGGTGTTGTCGAAGAACTCCTTTGGTTCATCAGTGGCTCAACAAATGCAAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G139880_T01 (Zea mays), 3'ss of exon 3
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattcatatgttagtttacacatttttat----tgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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-------------------------------------------------------------------------------------------ggagtccaaactcaaaaagaaagtttgaagaattatggtaccatatatttaggtagcacttcttgactaatgcaatacaataacatgtgctctttaacagAGGGTGTTTTGGCGTGGTGTTGTCGAAGAACTCCTTTGGTTCATCAGTGGCTCAACAAATGCAAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 4
gtatatattt----ttcaaaatgaagatttccttta-caaataattgtattagtttgt--tctgtgggtatttccttccgtttctcagaagtttggtt-ttatttgatgcattatgagtgaaattcaa-gtgaaaaaggaatattt-tttgtcaattc--atatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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gcatgtattagagattatggtttaagatgtgtttgatctgctgtgtaaaataacttgtcttttgtgtgaattcttttctttttcctttggttttgataattattgtgtttactactttggatgtttgctatggaaggggaatatctatttgtaaattttgatagagaatttgacttgatttcttcgattgatt--gtagAAAGTATTTTGGCGAGGGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAATGCCAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 4
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaa--ttcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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gtatgtatgaattttggttttgggttcatatatactactgcatagtaatttcttatttgtgtgctacttatc--tgatgcaattgttgtttgtgtttattgc-ttgaaagtttattggagaagactgaagaatatctgttgtacatcttgatataaaagttgacatgatttattcatttggttcc-tagAAAGTATTTTGGCGAGGGGTAGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAGTGCCAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 3
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaa--ttcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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gtatgtatgaatttcggttttggattcgtatatactactgcatagtaatttcttatttgtgtgctacttatctgatgtaattg--ttgtttgtgtttgttactttgaatgtttattggagaagactgaagaatatcttttgtacatcttgatataaaagttgacatgatttactcatttggtttc-tagAAAGTATTTTGGCGGGGGGTTATTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAGTGCCAAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 4
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattc--atatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
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--------------------------------------------------------------------------------------------------------------------------------------------gtaaattttggtagagaatttcacttgatttcttcaattgatt--gtagAGAGTATTTTGGCGAGGGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGGTCAACGAATGCCAAGMapped 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|110413975|gb|EC979795.1|EC979795EST: ATGCGGTTTAATCTACGAAAAACTTTTCCGCTTCTTACAACTAAG AAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGC
genomic: ATGCGGTTTAATCTACGAAAAACTTTTCCGCTTCTTACAACTAAGgtatatattt ... gctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttttgtcaattcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
tttgcttt CT-rich tract
tttacacatttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatatttttcaaaatgaagatttcctttacaaataattgtattagtttgttctgtgggtatttccttccgtttctcagaagtttggttttatttgatgcattatgagtgaaattcaagtgaaaaaggaatattttttgtcaattcatatgttagtttacacatttttattgtttgctttgatagAAAGTATTTTGGCGAGGGGTTGTTGAAGAACTGCTGTGGTTCATCAGTGGCTCAACAAATGCTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC