Sequence
atgc intronic sequence ATGC exonic sequenceGCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt...
Basic information
species | Glycine max |
transcript | GLYMA17G01820.3 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G01820.3 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g36790.1 (Oryza sativa), 5'ss of exon 2
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt
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---------GTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgtaatgttgtgctcctttgttttgtttgatgtcttcagatcaacttttatttactatatgtgccatcttgcag---------------------------
upper sequence: GLYMA17G01820.3 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g36790.3 (Oryza sativa), 5'ss of exon 1
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt
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CTTTTGAAGGTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgtaatgttgtgctcctttgttttgtttgatgtcttcagatcaacttttatttactatatgtgccatcttgcag---------------------------
upper sequence: GLYMA17G01820.3 (Glycine max), 5'ss of exon 1
lower sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcc-----tcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt
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---------GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtca-gcacctttgggattatgttttgttgaatttctctgttgtgtgt-gtgcag--
upper sequence: GLYMA17G01820.3 (Glycine max), 5'ss of exon 1
lower sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt
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---------ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatat-agtgttgcttgatat-------tttggttatttctttcttgtgtggatgtttattatttggtttt-tgggtgaatttgtgtattgcag--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|9902576|gb|BE611607.1|BE611607EST: TTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAG ATCTTCCAGGACTACNNNNNNNCTCAACATATACACTTCTTGTCCTTTTCT
genomic: TTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctc ... gtgctattagATCTTCCAGGACTACTTTTTTTCTCAACATATACACTTCTTGTCCTTTTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcctc