Sequence
atgc intronic sequence ATGC exonic sequence...gcagttagactattctattcaatacaaattatgttcattccatcttgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
Basic information
species | Glycine max |
transcript | GLYMA06G41190.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 7
gcagtta--gactattctattcaatacaaattatgttcattccatcttgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
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--agttactaactagtaaagttgtaaaaatctttcctgatgtcagaacaaggaattctatttgatcatacgtgctcaattttcaatctctctgtcatttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
upper sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 6
-gcagttagactattctattcaatacaaattatgttcattccatcttgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
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gtttttcccactggcatattgaagttgtagcgtggttgaaatatagttagt-tgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGGCAAATGTTTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA
upper sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0014g04740.t01 (Vitis vinifera), 3'ss of exon 6
gcagttagactattc---tattcaatacaaattat----gttcattccatcttga--aagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
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-----tgaatcatgcaaacattagatatagattttcgaggcttcttcaagtttcattagatgaatatttgattaa----tttagatcatcacctgattaaattttgcagTTTGCTATGCATTACTCATGGTCTACTGAGGCACGGGCACGACGTGCTTTGGCCAATGTATCAGCATTACTTCGTCCAGGAGGCATCTTCATCGGAACGAMapped 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|21602373|gb|BQ612704.1|BQ612704EST: TGGACAAAGTTCTTGCAGATGATGCTCCTTTTGATATTTGTAGCTGCCAG TTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTG
genomic: TGGACAAAGTTCTTGCAGATGATGCTCCTTTTGATATTTGTAGCTGCCAGgtaaatgata ... aatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
ttttaat putative branch site (score: 3)
cttttta CT-rich tract
tgataaactttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcagttagactattctattcaatacaaattatgttcattccatcttgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - ctattca
- - - - - - - - - - - - - - - - - -cattcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gataaac