Sequence
atgc intronic sequence ATGC exonic sequenceAAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttag
Basic information
species | Glycine max |
transcript | GLYMA01G42960.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G42960.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 5'ss of exon 9
AAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttag
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AAATTCTAATGGATGTAATCTTGCTGTTGACATATGGAGCTTAGGATGCACGGTTTTAGAGATGGCTACCTCAAAACCACCATGGAGCCAATATGAAGGGgttag----tacttatactaggct--------cttaa-gctgtattttatgtttttgtgcaacacacattt---tcttttcatgagaaggtactccctttggtcataaatatttga------------------------------
upper sequence: GLYMA01G42960.1 (Glycine max), 5'ss of exon 8
lower sequence: AC209208.3_FGT001 (Zea mays), 5'ss of exon 8
AAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttag
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AAATGCTAGCGGATGTAACCTTGCAGTTGATATATGGAGTTTAGGATGCACAGTCCTAGAGATGGCTACTTCAAAACCACCATGGAGCCAATATGAAGGGgttag----tgtt------agactttaaagctatgatttgtgtttc-tgta----------------gtgtaaatttgattgcagagggtcacacat-tatgcaagatgtatgatgcacctttttttc------------------
upper sequence: GLYMA01G42960.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G093316_T01 (Zea mays), 5'ss of exon 9
AAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagca-catgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttag
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AAATGCTAGTGGATGTAACCTTGCAGTTGATATATGGAGTTTAGGATGCACAGTCCTAGAGATGGCTACTTCAAAACCACCATGGAGCCAATATGAAGGGgtcag----tgtt----------------agactttacagc-tataatttgtgtttctgtagtgaa-------atttcgttgctagggtaacacattatattagaatgcatcttttttttcctgctaa-------------------
upper sequence: GLYMA01G42960.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 5'ss of exon 8
AAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttag
||||||||||| |||| ||||| || || |||||||| ||||| | ||| ||||| || |||||||| || |||||||| |||||||| || ||||||||||| ||| | | || | | ||| | || || | ||| | ||| || | ||||| |
GAATTCAAATGGCAGTAACCTTGCGGTCGACATATGGAGTCTTGGATGTACTGTTTTAGAAATGGCTACAACGAAACCTCCATGGAGCCAGTATGAAGGGgttagtaaatcat-ataagtactcaacaaacatgagattgaatgatgcgactcttccatccttatgtattcgagt-tctttacag-------------------------------------------------------------
upper sequence: GLYMA01G42960.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv02s0025g03370.t01 (Vitis vinifera), 5'ss of exon 10
AAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttag-----ggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagca----catgtttg-tatac---aatgctcattgctcatctttctttctgtcgtactacatgttag-------
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GAACTCAAATGGCTGTAATCTTGCAGTCGATTTATGGAGTCTTGGGTGCACAGTTTTGGAGATGGCTACAACAAAACCACCTTGGAGCCAGTATGAAGGGgtaggcattcaaaattgtgttttttattttccaaatattgcac-ttaatcaatgtctcttcttgta---actatattcatatctcagtgagagcattgacatgctagacatactggagtgtgcttgacccattttttctctta-cattctaccttcttctccaaagMapped 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|192322612|gb|FK014733.1|FK014733EST: CTACTACAAAACCTCCTTGGAGCCAATACGAAGGG GTCGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCA
genomic: CTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaat ... tacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCTACCGTTTTTGAGATGGCTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG