Sequence
atgc intronic sequence ATGC exonic sequenceTCCTACCGCAGAAGATGCCAAACCTCGCAGGGTGGGAGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataattattacttgcttctgccttttgtgttacatgagggtttcttttggataaactcagttttaaaaaaatgttattttggtggccag
Basic information
species | Glycine max |
transcript | GLYMA04G07100.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G07100.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G137479_T02 (Zea mays), 5'ss of exon 6
--TCCTACCGCA-GAAGATGCCAAACCTCGCAGGGTGGG-AGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataattattacttgcttctgccttttgtgttacatgagggtttcttttggataaactcagttttaaaaaaatgttattttggtggccag
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CGAAGAATCAAATGAAAGTGTGAAACCTCAAAGGGTGGGCAGCACTCCTTCA-TATGGATTTAGTTTTAAGTGTGATGAGAGAGCTGAAAAAAGAAGAGAGgtaactcattgttagataactttgcactg-gttttagtttaagaacatttgggcaccattcctttccttacaccgttctgcaatgata--tag
upper sequence: GLYMA04G07100.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G056166_T04 (Zea mays), 5'ss of exon 6
--TCCTACCGCA-GAAGATGCCAAACCTCGCAGGGT-GGGAGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataattattacttgcttctgccttttgtgttacatgagggtttcttttggataaactcagttttaaaaaaatgttattttggtggccag
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AGAAGAATCAAATGAAAGTGTGAAACCTCAAAGGGTTGGCAGCACTCCTTCA-TATGGATTTAGTTTTAAGTGTGATGAGAGAGCTGAAAAACGAAGAGAGgtaactcattatagataactt--agcactggtttagtttaagaacttatgg-gcatcattcctttgcttacactatcctgcaatgata--tag
upper sequence: GLYMA04G07100.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G32330.2 (Arabidopsis thaliana), 5'ss of exon 6
TCCTACCGCAGAAGATGCCAAACCTCGCAGGGTGGGAGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataattattacttgctt--ctgccttttgtgttacatgag-ggtttcttttggataaac-tcagttttaaaaaaatgttattttggtggccag
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TCCGAAAGCAGACGATGGAAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAAATGTGACCAACGGGCTGAAAAGAGAAAAGAGgttagca-ttctggttcactagattgtcctct-cgccacaaaaataattacatgtaatcatatatctgctttcatatggtgcag-------------
upper sequence: GLYMA04G07100.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G32330.3 (Arabidopsis thaliana), 5'ss of exon 6
---TCCTACCGCAGAAGATGCCAAACCTCGCAGGGTGGGAGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataattattacttgctt--ctgccttttgtgttacatgag-ggtttcttttggataaac-tcagttttaaaaaaatgttattttggtggccag
||| | ||||| |||| |||||||| | || || ||||||||||| ||||||||||||||||| ||||| | || ||||| | ||||||||||| | | || | | || || | | | | ||| | || | | | | | || | ||| | | ||
TAGTCCGAAAGCAGACGATGGAAAACCTCGTAAAGTTGGTGCACTTCCAAATTATGGATTCAGTTTCAAATGTGACCAACGGGCTGAAAAGAGAAAAGAGgttagca-ttctggttcactagattgtcctct-cgccacaaaaataattacatgtaatcatatatctgctttcatatggtgcag-------------
upper sequence: GLYMA04G07100.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv11s0016g05460.t01 (Vitis vinifera), 5'ss of exon 6
---TCCTACCGCAGAAGATGCCAAACCTCGCAGGGTGGGAGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaat--aattattacttgcttctgcct---tttgtgttacatgagggtttcttttggataaactcag---ttttaaaaaaatgttattttggtggccag----
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AAGCCCTGAGGAAGGAGATGCTAAACCTCAACGAACAGGCCATCTTCCTGCATATGGCTTCAGTTTCAAGTGTGATGAGAGAGCTGAGAAACGAAAAGAAgttagtttgattcttatttgcacaaatttacattcattttgtgtttcagcttcacttgatcaaattcagggattttatttttttatttcttttttgattgggcagMapped 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|193310819|gb|FK274673.1|FK274673EST: AATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAG TTCTACACTAAGCTTGAGGAAAAGATTCATGCTAAGGAAGTGGAGGAGAGT
genomic: AATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataatt ... tggtggccagTTCTACACTAAGCTTGAGGAAAAGATTCATGCTAAGGAAGTGGAGGAGAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTACCGCAGAAGATGCCAAACCTCGCAGGGTGGGAGCACTTCCAAAATATGGATTCAGTTTCAAGTGTGATGAGCGAGCTGAGAGAAGAAAAGAGgtaaataattattacttgcttctgccttttgtgttacatgagggtttcttttggataaactcagttttaaaaaaatgttattttggtggccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA