Sequence
atgc intronic sequence ATGC exonic sequenceTTTGGTTGACCTGACCAGCCGAGCACTTGCTCGGATTATTGAAGGAAAAACTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatgatagcgaaagtgagcctttaagtctgcaatcatatttctttatttacattaggatctttgccag
Basic information
species | Glycine max |
transcript | GLYMA09G25090.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G25090.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g01660.1 (Oryza sativa), 5'ss of exon 4
TTTGGTTGACCTGACCAGCCGAGCACTTGCTCGGATTATTGAAGGAAAAACTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatgatagcgaaagtgagcctttaagtctgcaatcatatttctttatttacattaggatctttgccag-----
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ATTGGTTGATCTTACCAGTCGAGCACTTGCTCGAATAATTGAAGGAAAGACACCTGAGGAAATTCGTGATATTTTCCATTTGCCAGATGACTTAACAGAGgtac------aaatcgcatgtctgcttatag--ttatcagcatgtattgatgcttactgtggaacttgcattcattcag
upper sequence: GLYMA09G25090.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G055785_T01 (Zea mays), 5'ss of exon 4
TTTGGTTGACCTGACCAGCCGAGCACTTGCTCGGATTATTGAAGGAAAAACTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatgatagcgaaagt--gagcctttaagtctgcaatcatatttctttatttacattaggatctttgccag
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ACTTGTTGATCTTACTGGCCGAGCGCTTGCTCGAATCATTGAAGGAAAGACACCTGAGGAAATTCGTGACATTTTCCATTTACCAGATGATTTAACAGAGgt-tagagtgttttctatagttttagatattgattcattaa--atacttatt-gtcaaaacttacatccac-tcag
upper sequence: GLYMA09G25090.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G109725_T03 (Zea mays), 5'ss of exon 4
TTTGGTTGACCTGACCAGCCGAGCACTTGCTCGGATTATTGAAGGAAAAACTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatgatagcgaaagtgagcctttaagtctgcaatcat--atttctt--tatttacattaggatctttgccag
| ||||| || || || ||||| |||||||| |||||||||||||| || |||||||| || ||||| | || || || || ||||| | || ||||| | || | | || ||||| | || |||||| | | ||| | | | | | || |||
ACTTGTTGATCTTACTAGTCGAGCTCTTGCTCGAATTATTGAAGGAAAGACACCTGAGGAAATCCGTGACATTTTCCACTTACCAGATGACTTAACAGAGgt-tagagtgccttctatag-----ctttagatgtgaaatcattaaatacttactgtcaaaacttacatgccc-tcag
upper sequence: GLYMA09G25090.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0050g00720.t01 (Vitis vinifera), 5'ss of exon 4
TTTGGTTGACCTGACCAGCCGAGCACTTGCTCGGATTATTGAAGGAAAAACTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatgatagcgaaagtgagcctttaagtctg--caatcatatttctttatttacattaggatctttgccag
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TTTGGTTGACCTCACCAGCCGTGCACTTGCTCGAATTATTGAGGGGAAAACTCCTGAGGAAATTCGTGAGACGTTTCATTTGCCTGATGATCTTACAGAGgtgtttgttgg-aaaaattcagagtctcaagattttgtctgcttcaatttctcatatagatttgt-tttttcccagMapped 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|15203134|gb|BI425902.1|BI425902EST: CTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAG GAGGAGAAGCTGGAGCCTCTGAGAAACATAACTGATGATCCACGAATTCGA
genomic: CTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatg ... tctttgccagGAGGAGAAGCTGGAGCCTCTGAGAAACATAACTGATGATCCACGAATTCGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGGTTGACCTGACCAGCCGAGCACTTGCTCGGATTATTGAAGGAAAAACTCCTGAGGAGATTCGTGAAACATTTCATTTGCCTGATGATCTCACTGAGgtgtgtgatgatagcgaaagtgagcctttaagtctgcaatcatatttctttatttacattaggatctttgccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT