Sequence
atgc intronic sequence ATGC exonic sequence...aattatgttgaaactggaaacaggttatttactgtttttttgctaaaatttctgcagctatagtttttgcagctcaaatatgaactctgctttttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
Basic information
species | Glycine max |
transcript | GLYMA17G00260.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G44090.1 (Arabidopsis thaliana), 3'ss of exon 1
-aattatgttgaaactggaaacaggttatttactgtttttttgctaaaatttctgcagctatagtttttgcagctcaaatatgaactctgctttttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
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ctcttatgttcttattcctcctggtttatct-ttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
upper sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G59910.1 (Arabidopsis thaliana), 3'ss of exon 2
aattatgttgaaactggaaacaggttatttactgtttttttgctaaaatttctgcagctatagtttttgc---agctcaaatatgaactctgctttttgc-tagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
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----atgttactaaatgtcatagacaaaacaattccgcttaagaaaactttaaatcagtttgtttaacatgtgagttcatatttggtttgtacatgatgtatagGTTGCATGAGCGTCTCCAAGAGTGCAACGGGGATGAGATTCTAAAAGCAGAGGCTGGTGCCAAAGTTCAGAAGTTCACTGAATGGGCTCTCAAATGTATA
upper sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
aattatgttgaaactggaaacaggttatttactgtttttttgctaaaattt-ctgca-gctatagtttttgcagctcaaatatgaactctgctt-tttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
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gagacaggagttattgataccatgt-agttgctgactgttattagatgtttgttgcatgctatccatgtgccaatttg--tctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATTMapped 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|23726896|gb|BU761451.1|BU761451EST: CAGAGTAGAACAATGAGTCTTGCGGATACAGTTACTGTAATGGCCCAAAG GTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGA
genomic: CAGAGTAGAACAATGAGTCTTGCGGATACAGTTACTGTAATGGCCCAAAGgtacgacttg ... tttttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGA
EST:
gi|208242307|gb|GE036069.1|GE036069EST: CAGAGTAGAACAATGAGTCTTGCGGATACAGTTACTGTAATGGCCCAAAG GTTGCATGAGCGTCTCCAGGAATGCAAT
genomic: CAGAGTAGAACAATGAGTCTTGCGGATACAGTTACTGTAATGGCCCAAAGgtacgacttg ... tttttgctagGTTGCATGAGCGTCTCCAGGAATGCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttctgcagctatagtttttgcagctcaaatatgaactctgctttttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
tgctaaa putative branch site (score: 2)
ctctgctttttgct putative PPT
tatagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattatgttgaaactggaaacaggttatttactgtttttttgctaaaatttctgcagctatagtttttgcagctcaaatatgaactctgctttttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - -tgttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - tgcagct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgaac