Sequence
atgc intronic sequence ATGC exonic sequenceATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtgagtactctgcttctcgaatatggctatgcaaaaatatatgctcccatgtgtcattttaatgccaaatactaaatgtcctactcttattcag
Basic information
species | Glycine max |
transcript | GLYMA20G38320.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 5'ss of exon 6
ATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtgagt----actctgcttctcgaatatg-gctatgcaaaaatatatgctcccatgtgtcattttaatgccaaa-tactaaatgtcctactct-tattcag-------
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ATGCGTGCTGGGCTCTTTCATATTTATCTGATGGCACTAATGACAAGATCCAAGCCGTGATTGAAGCTGGTGTTTGCCCCCGTCTTGTGGAGCTTCTCCTgtaagtgacaacattgcattacaattttctgccattttcctttagat--tcttatttgctactctcattataccctttttaatattttatactgtttacaacatgaag
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G091119_T01 (Zea mays), 5'ss of exon 6
ATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtg------agtactctg---cttctcgaatatggctatgcaaaaatatatgctcccatgtgtcattttaatgccaaatac-taaatgtcctact--cttattcag
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ATGCTTGCTGGGCTTTGTCATACTTATCTGACGGCACTAATGATAAGATCCAAGCTGTAATTGAAGCTGGTGTTTGCCCCCGGCTTGTGGAGCTCCTTCTgtatgtcaaaatgctgtgtaacaactctatgatgatcacttggatagtttttgttatttgcaccagttctttatcttttatatgagtgtgctgataccacatgcag
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G088231_T01 (Zea mays), 5'ss of exon 6
ATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtg------agtactctg------cttctcgaatatggctatgcaaaaatatat-gctcccatgtgtcattttaatgccaaatactaaatgtcctact--cttattcag
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ATGCATGCTGGGCCCTGTCATACTTATCTGACGGCACTAATGATAAGATCCAGGCTGTGATTGAAGCTGGTGTTTGCCCCCGGCTCGTGGAGCTTCTCCTgtatgtgaaaatgatgtgtaacaacttcatgttgattacttcgatagtttttgttgtttgcaccagtttttttaatcttgtatatgatgtgtgctgataccacatgcag
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 5'ss of exon 6
ATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtgagtactctgcttctcgaatatggctatgcaaaaatatatgctccc--atgtgtcattttaat-gccaaatactaaatgtccta--ctcttattcag-----------
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ATGCATGTTGGGCACTGTCTTATCTTTCTGATGGTACAAATGACAAAATTCAAGCTGTTATTGAAGCGGGTGTATGTCCTAGGCTTGTTGAACTTTTACTgtgagtttttagaaattttgagttagttctggacttcttttggctgtgggatgtgttgtttccattaatttgtacctcgggcctgaacttctttcttggactttggtcag
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S43_141V6.1 (Physcomitrella patens), 5'ss of exon 7
ATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtgagtactctgcttctcgaatatggctatgcaaaaatatatgctcccatgtgtcattttaatgccaaatactaaatgtcctactcttattcag--------------------------------------------
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ATGCGTGTTGGGCCCTTTCTTATTTGTCCGATGGCACAAACGACAAAATCCAGGCTGTGATTGAAGCTGGTGTCTGTCGTCGACTTGTGGAGCTGTTGCTgtatgggtcttatttttcccttttgtgttcttatcttcgttttctttctagctagtattttatgacacg-attgtttgaattaagcgtgctcgagaagttacttcagaactgagtattggctttgtcgttcgtagcagMapped 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|16996647|gb|BM086019.1|BM086019EST: CAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCT GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATAT
genomic: CAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtgagtactc ... tcttattcagGCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCATGTTGGGCACTGTCATATCTTTCTGATGGCACAAATGATAAAATTCAAGCTGTAATTGAAGCTGGTGTTTGTCCCCGACTTGTTGAGCTGCTGCTgtgagtactctgcttctcgaatatggctatgcaaaaatatatgctcccatgtgtcattttaatgccaaatactaaatgtcctactcttattcag
- - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT