Sequence
atgc intronic sequence ATGC exonic sequenceCGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttcttatttctcagtataaaatgaaggagaatgtttacaagtgctcttacgatactagttaaggaataaaagtgaaaagtttattatgaaaaagt...
Basic information
species | Glycine max |
transcript | GLYMA20G09810.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 5'ss of exon 6
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttcttatttctcagtataaaatgaaggagaatgtttacaagtgctcttacgatactagttaaggaataaaagtgaaaagtttattatgaaaaagt
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AGGGTTGATACTGCCCTTAAGAACATTGGCATAAACGAGCGAGTGCCCTATAATGCTCCTCTTATTCAATTTTCTTCTTGGATGGGTGGAGACCGTGATGgtatgttac-atctatca-tatcatgtttgcaacatagtt---aattaattgtgaaattatggttttaatattgatgtggactacag-------------
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 4
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtagg-----ttcttatttctcagtataaaatgaaggagaatgt-ttacaagtgctcttacgatactag------ttaaggaataaaagtgaaaagtttattatgaaaaagt-------------------------------------------
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CGTGTGGATACTGCATTGAAGAACATCGGTATCGACGAGCGTGTTCCTTACAATGCTCCTCTTATTCAGTTCTCGTCTTGGATGGGAGGAGATCGTGATGgtgagaaacatatctattttgttgt-tggttcttagcactatgccttataaataattacagcacaatgaatcctctttagatgttgtctttaaattactaccacttaggagataccatgtctgtatgcactctaaatttcaaatgacctttacag
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 4
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttcttatttctcagtataaaatgaaggagaatgtttacaagtgctcttacgatactagttaaggaataaaagtgaaaagtttattatgaaaaagt
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CGTCTGGACACTGCCTTGAAGAACATCGGAATTGATGAGCGTGTTCCTTATAATGCACCTCTCATTCAGTTCTCTTCTTGGATGGGAGGAGACCGTGATGgtatgcaaaggatggcttttgacttctgtatagttcagttcttgtgcatt-taataattttgtgcattgcaccaatttag--------------------
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G473001_T02 (Zea mays), 5'ss of exon 3
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggt--------------------tcttat-ttctca--gtataaaatgaagga--gaatgtttacaagtgctcttacgatactagtt--aaggaataaaagtgaaaa--gtttattatgaaaaagt---------------------------------------------------
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CGGGTTGATACTGCATTGAAGAACATTGGGATTAACGAGCGTGTTCCTTACAATGCACCTCTTATTCAATTCTCTTCTTGGATGGGGGGAGATCGTGATGgtgagtgacacatctctacatatttgtcttgtcttctcatggcattatattaaatatgcagtatttgcagcacctattattatctttgtttctagtggttaggaagatgattattcattgtgcctgtgtctgcggtttgcacctctgtcctattctaaagcaatgtctctacaaatgcag
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 4
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttcttatttctcagtataaaatgaaggagaatgtttacaagtgct----cttacgatactagttaa-ggaataaaagtgaaaagtttattatgaaaaagt-----------
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AGGGTTGACACTGCTCTTAAGAACATTGGCATAAATGAGCGGTTGCCATATAATGCCCCTATCATTCAGTTTTCTTCTTGGATGGGTGGTGACCGTGATGgtacatagcattctctctcccttatttggat-agtatatttg-atgtgctgaatcatgcaactgtagttcacaagaaagaagtgcaaatataactctgaactgatgtccatgacag
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 5'ss of exon 4
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttcttatttctcagtataaaatgaaggagaat-gtttacaagtgctctta-cgatactagttaaggaataaaagtgaaaagtttattatgaaaaagt
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CGTGTTGACACAGCTTTGAAAAACATAGGCATAAATGAACGTGTTCCTTACAATGCACCTCTAATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGATGgtatgagtcttcttcacaaacaaatatatattcaacttattttcttgaattataagcattgcttgttaatttaggaatg-gaggaaattagcaaaacattg-Mapped 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|151396752|gb|EV266625.1|EV266625EST: TAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATG GCAATCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTA
genomic: TAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttctt ... tatgatgcagGCAATCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTGTTGATACAGCTTTGAAGAATATAGGGATCAACGAACGTGTCCCTTATAATGCTCCTCTCATTCAATTTTCTTCTTGGATGGGTGGAGATCGTGATGgtaggttcttatttctcagtataaaatgaaggagaatgtttacaagtgctcttacgatactagttaaggaataaaagtgaaaagtttattatgaaaaagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaataaa