Sequence
atgc intronic sequence ATGC exonic sequenceGGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttagaactttaactacttttagcatatgacttttaatctacttagttgaaagactttataactaatgggttggtggttaatgtattctcctttggttgt...
Basic information
species | Glycine max |
transcript | GLYMA16G03670.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G03670.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os10g38950.1 (Oryza sativa), 5'ss of exon 3
GGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttag--aactttaact---actttt----agcatatgacttttaatctacttagttgaaagactttataactaatgggttggtggttaatgtattctcctttggttgt------------------------------------------------------------------------
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AGACAACTTTAATGATGTTTACATTGTTTCTGAGTTGATGGATACTGATCTCCATCAGATCATACGCTCAAATCAACCATTGACTGATGACCACTGCCAGgtttgttgcttccagcttgtgctttgctgaaacattttgcttgcagaaaatctagacagagatttccatgcaccttgttcctttggtcgctatatgttttcttcatcctatccatatttcagcttaacattctcttgtttatctggtttaataatcacaagtgacatgttttgcattgcag
upper sequence: GLYMA16G03670.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G127141_T01 (Zea mays), 5'ss of exon 3
GGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttaga-actttaactacttttagcat-atgacttttaatctacttagttgaaagactttataactaatgg--gttggtggttaatgtattctcctttggttgt
|| ||||| ||||| |||||| ||||| ||||||||||||| |||||||| ||||| || | || || ||||||| |||||||||||||||||| | ||| | || | || | | | ||| | | | | || ||| | || ||| | ||| ||| ||| | ||| ||
AGAGAACTTTAATGACGTGTACATTGTTACTGAGTTAATGGATACAGATCTCCATCAGATCGTACGCTCAAATCAGCCATTGACTGATGATCATTGCCAGgtctgttgctccagcttgtgccaaagttatgttataccaaacagatttttatccaactattcaagtaaatgatgtttgtgcccaattcagaaa---ttgatta-
upper sequence: GLYMA16G03670.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G01370.1 (Arabidopsis thaliana), 5'ss of exon 3
GGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttagaact----------ttaactacttttagcatatgacttttaa---tctacttagttgaaagactttataac--taatgggt-tggtggttaatgtattctcctttggttgt-------------------------------------------------------------------------
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AGAGAACTTCAATGATGTTTACATTGTTTATGAGCTTATGGACACTGATCTCCACCAAATTATTCGCTCTAACCAACCCTTAACTGATGATCATTGTCGGgtatgcatcaatctccatcttgcttatatctagcagctgaatcttctgtttctactttagaagcagctgttattgtgttagagcatctgatgagtattgcttgatactttataagtgagagctaataaggatttcgtttgttatgctttgaagttgtgtttagtaattagtttcgattatgttttgcag
upper sequence: GLYMA16G03670.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G46070.2 (Arabidopsis thaliana), 5'ss of exon 3
GGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttagaactttaactacttttagcatatgacttttaatctacttagttgaaagactttataactaatgggttggtggttaatgtattctcctttggttgt
|| | |||||||||||| ||| |||| | ||||||||||||||| ||||| || | ||| | ||||| || || | |||| |||||| || || || || | | | | | ||| || | || | | | || || || || | || | | | |||| | |
AGATATCTTCAATGATGTCTACATTGTCTATGAGTTAATGGACACTGATCTTCAGCGAATCCTCCGTTCTAACCAAACACTGACCAGTGATCAATGCCGTgtaagtctctgtgttgttctaatcatttg----taaagtcatggaactctctgatttgatctttatt-------ctatttacttgtcttcctgttacag-
upper sequence: GLYMA16G03670.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv15s0046g02010.t01 (Vitis vinifera), 5'ss of exon 3
GGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttagaactttaactacttttagcatatgacttttaatctacttagttgaaagactttataactaatgggttggtggttaatgtattctcctttggttgt-----
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GGAGAACTTCAATGATGTCTACATTGTTTATGAATTAATGGACACTGATCTGCATCAGATAATACGTTCCAACCAACCACTGAATGATGACCACTGCCGGgtttgg-caccacaaacttttattggagcacttt--atctatatcattgcaacaaatcactttgaattg--tcattgctcatgtttactatttcagcccattgccMapped 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|23052819|gb|BU577310.1|BU577310EST: TGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGG TATTTTCTGTATCAATTGTTACGA
genomic: TGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttagaactt ... tttgccccagTATTTTCTGTATCAATTGTTACGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAAAACTTCAATGATGTGTACCTTGTTTCTGAGTTAATGGACACAGATCTGCATCAAATAATTCGTTCCAATCAGCAATTGACTGATGATCATTGTCGGgttagaactttaactacttttagcatatgacttttaatctacttagttgaaagactttataactaatgggttggtggttaatgtattctcctttggttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggttgg