Sequence
atgc intronic sequence ATGC exonic sequencegtgctatattgttactgaaggagatatattaaatggttgattatgtgtgtatttggttatatgatatgccatactatatttatggtgtggctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAGGCACTCCATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
Basic information
species | Glycine max |
transcript | GLYMA18G43020.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G43020.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 5
--------gtgcta--tattgttactgaaggagatatattaaatggttgattatgtgtgtatttggttatatgatatgccatactatatttatggtgtggctgg----ctggttactgt--agGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAGGCACTCCATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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gttcatttgtgctggttattgttgtctacttgtcttcatgcaaagcttttcta-aagaatacatgtacacttcgggtagttggcagtgttagtggcctgacaagtcatctaattgtttttcagGAAGCAACTGAACTAGGTAAAAAGGCAAGAGATCTAAAGAAAGCAGCTGATGCACTTCACCAGGAAGAACGAAGTGGTGCTAAGGGAAGGAAGTGGAGGA
upper sequence: GLYMA18G43020.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgctatattgttactgaaggagatatattaaatggttgattatgtgtgtatttggttatatgatatgcca--tactatatttatggtgtggctggct------ggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAGGCACTCCATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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-----------------------gtctggttattgttctcctctggaagcatctctctagatcttgagtcaatccctctgtctcttgcatgattaactccataaatatattacagGAGGCAACCGAACTAGGTAAAAAGGCAAGAGAACTAAAGAAAGCAGCTGATGGACTTCATCAGGAAGAAAGAAGTGGTGCTAAGGGCAGGAAATGGCGGA
upper sequence: GLYMA18G43020.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 5
---gtgctatattgttactgaaggagatatattaaat--ggttga--ttatgtgtgtattt--ggttatatgatatgccatact---atattt--atgg--tgtggctggctggt-------tactgtagGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAGGCACTCCATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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gtgctgctttttttctttttaatagtgcatcgtgtatccatttgaaattatctaaatatttttggttatgtgatgatggatatttgcatgtttcaatcacttatggatggttgtcattgatatcctgtagGAAGCCACTGAACTAGGTAAAAAGGCAAGAGACTTGAAGAAAGCGGCTGATGCGCTCCATCAGGAAGAAAGAAGTGGTTCCAAGGGTAGAAAGTGGCGTAMapped 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|208166242|gb|GD959134.1|GD959134EST: CATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCACAGTATATCAAG GAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAG
genomic: CATTTATTCGGCGTCCAAAGGCTGTTATCACTCGCTCACAGTATATCAAGgtgctatatt ... gttactgtagGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggttatatgatatgccatactatatttatggtgtggctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAGGCACTCCATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
atactatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctatattgttactgaaggagatatattaaatggttgattatgtgtgtatttggttatatgatatgccatactatatttatggtgtggctggctggttactgtagGAAGCCACTGAACTGGGTAAAAAAGCTAGAGAACTAAAGAAAGCAGCTGAGGCACTCCATCAGGAAGAAAGAAGTGGTTCAAAGGGTAGAAAGTTTCGTA
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