Sequence
atgc intronic sequence ATGC exonic sequenceGAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacatagtatttttactctgtagtacaaaatctttaatataacaatcaagtgctaactcaaaattcatactgcacag
Basic information
species | Glycine max |
transcript | GLYMA04G05550.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g51210.2 (Oryza sativa), 5'ss of exon 4
GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacat--agtatttttactctgtagtacaa---------aatctttaatataa-caatcaagtgctaactcaaaattcatactgcacag
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GAGGGTATGGAACAATGGAGGAGTTGTTAGAGATGATAACTTGGTCACAACTTGGAATTCATGACAAACCAgtgagtttaagtacataggctggctatgacaattgacaaacaagttttcctacaaataatcaaagg--aactgatcattgacttacaacag
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g46360.2 (Oryza sativa), 5'ss of exon 5
GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaa-catagtatttttactctgtagtacaaaatctttaa------------tataacaatcaagtgctaactcaaaattcatactgcacag----------------------
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GGGGCTATGGAACAATGGAGGAGCTGTTAGAGATGATAACATGGTGCCAACTTGGAATTCATGACAAGCCAgtaagcataattgagatatttgatactagatatattgtaaacggcaaagtagcataatgctttgttgatggattaaggtctccatcacatataaaaccttggccaattgaacag
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacat-agtatttttactctgtagtacaaaatctttaata-taacaatcaagt--gctaactcaaaattcatactgcacag
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GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtttctgtag--
upper sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0008g01040.t01 (Vitis vinifera), 5'ss of exon 5
GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaac-------------atagtatttttactctgtagtacaaaatctttaatataacaatcaagtgctaactcaaaattcatactgcacag---------
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GAGGATATGGAACCATGGAAGAGCTGCTGGAGATGATTACATGGTCGCAACTGGGAATTCATAAAAAACCAgtaatccgtcgatctcttatacttttttttccttgtaaaataaagagagagagagagagagagagagagagagagagagagaagct-tacatcctagcataMapped 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|209721045|gb|BW666302.1|BW666302EST: AGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCG GTTGGTCTACTGAATGTTGACGGTTACTATAACTGTTTGCTTGCATTATTT
genomic: AGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacatagt ... tactgcacagGTTGGTCTACTGAATGTTGACGGTTACTATAACTGTTTGCTTGCATTATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacatagtatttttactctgtagtacaaaatctttaatataacaatcaagtgctaactcaaaattcatactgcacag
- - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - GAGATG