Sequence
atgc intronic sequence ATGC exonic sequenceAAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggactaatttcttgaatggatctagatcccctctcattgggtgatctgttccctactctttattatttgttagcaactaattttttttttttg...
Basic information
species | Glycine max |
transcript | GLYMA09G00430.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggactaatttcttgaatggatctagatcccctctcattgggtgatctgttccctact--ctttattatttgttagcaactaattttttttttttg-
| | || || | ||| | || || ||||| |||||||| ||||||||||||||||| ||||||||||| ||||||||||| || || |||||||||||||| | | || || |||||| | || | | | || ||||| || | ||| | || | | | || | | | |
ATGTCTTCAAAAGTGATGCAAAAAAGATGGTAGTTGCACTTGTTGATATGGAGCGTGCCTTTGTCCCACCACAACACTTCATCCGTTTAGTACAAAGAAGgtatgtcaggctc-ttaattgaataactttacagttggtttggttt--caatctgctctaatgtaacttcagtaaataatttccaccacaaaagctgataggg
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgt--aatttggactaattt-cttgaatggatctagatcccctctcattgggtgatctgttccctactctttattatttgttagcaactaattttttttttttg
| | || || ||||| | || || |||||||||||||| |||||||||||||| || ||||| || ||||| || ||||| || | || |||||||||| | ||| | ||| ||| | | || | | | | | | ||| || ||| | | | | ||| | || ||||||
ACAGCTTCAAAAATGATGCAAAAAAGATGGTTGTTGCACTTGTTGATATGGAGCGCGCCTTTGTTCCTCCTCAGCATTTCATCCGTCTAGTGCAAAGAAGgttgatttttggctagttttcccccttcaattttagttatcatttgtct--ccaatagttagttaacatttctccctgttcaatttcta-tacttactttttg
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G157462_T01 (Zea mays), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggactaatttcttgaatggatcta-gatcccctctcattgggtgatctgttccctactctttatt--atttgttagcaactaattttttttttttg-
| || || || || | || || ||||| ||||| || ||||||||||| ||||||||||| || || ||||| ||||| ||||| ||||||||||||| | | | ||||| ||| ||| | | ||||| || |||| | || | | | | | || | || ||||
AGACCTTCAAAAACGACGCCAAAAAGATGGTCGTTGCGCTTGTTGATATGGAACGTGCTTTTGTTCCTCCCCAACATTTCATCCGCTTAGTACAAAGAAGgtcagtcat-caggtttctgtaatttgtctctagttacagttcatt---tgcgttgttgtgtgcttgtaacttgacaaaaaaagtgttatatgcttccatttgt
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggactaatttcttgaatggatctagatccc-ctctcattgggtgat--ctgttccctactctttattatttgttagcaactaattttttttttttg
| || || ||||||||| | ||||||||||| |||||||| ||||||||||| || |||||||| ||||||||||| || || || | || ||||| ||||| ||||| | || | | | | | | ||| ||| | || ||| || | | || | ||| ||| | | |
ATGGTTTCAAGAATGAAGCCAAGAAAATGGTGGTTGCACTAGTTGATATGGAACGCGCTTTTGTACCACCTCAACATTTTATCCGTCTTGTGCAAAGGAGgtattttggcttgtctttctttgcaatttttgtttttattttcaatggttcatgactgaaaattatttctctttctgacgatgcactgtattgactccatcag
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggactaatttcttgaatggatctagatcccctctcattgggtgatctgttccctactctttattatttgttagcaactaattttttttttttg-
| || || ||||||||| | ||||| ||||| |||||| | ||||||||||||||||| ||||| |||||||| |||||||| ||| | ||||||||||||||| | || | || | | | | | | || || | | | | | | |||| || ||| | ||||| | ||||
ATGGATTCAAGAATGAAGCTAAGAAGATGGTAGTTGCATTAGTTGATATGGAGCGTGCATTTGTACCACCTCAGCACTTCATCCGCCTCGTACAAAGAAGgtaacatcagcttccctttttttgctttttggctgtcatttcgagtggcgttatcatactcaaaacttatagattattatct-taaatttccatcttttaa
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: Vv18s0089g00350.t01 (Vitis vinifera), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggac-taatttct-tgaatggatctagatcccctctcattgggtgatctgttccctactctttattatttgttagcaactaattttttttttttg
| | ||| ||||||||| | ||||||||||| ||||| || || ||||||||||| |||||||| || ||||||||||||||||| ||||| ||||||||||| | | | | || | || | | ||||| | ||| | || | | | ||||| || | | ||| |
ATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTCAACACTTCATTCGTTTGGTGCAAAGAAGgtactgggaatatgatataagcctatatttttggatccattgtcaataagt-agaaacttttgagctattattgttactgtttcagtaaactcaaaaaaaa-
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: PP1S109_214V6.1 (Physcomitrella patens), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaa--tttggactaatttcttgaatgg-atctagatcccctctcattggg---------tgatctgttccctactctttattatttgttagcaa-------ctaattttt-tttttttg----------------------
| | || || ||| | ||||||||||||||||| || ||||||||||||||||| ||| | || ||||||||||| || | | || || | ||||| |||| | || | ||| | | | | | | || || |||||| || | || | || | ||||| | | | ||| ||||| ||
ATGAGTATAGAGCAGAAGCAAAGAAAATGGTTGTTGCGCTTGTTGATATGGAGCGTGCATTTATTCCCCCTCAACACTTTATCAGACTTGTTCAGCGCAGgtagagcttggcttgatattttgtcttgtagttggggatcagtgcagaggaaacctcctctgatctatttgcggctactggtttatgtttagcgaggtcgttcgggtgtttatttttctgataaagtgttacacttaaacag
upper sequence: GLYMA09G00430.2 (Glycine max), 5'ss of exon 12
lower sequence: PP1S33_163V6.1 (Physcomitrella patens), 5'ss of exon 12
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgta-atttggactaatttcttgaatggatctagatcccctctcattgggtgatctgttccctactctttattatttgttagcaactaattttttttttttg--
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ACGAATACAGGGTTGAATCAAAGAAAATGGTTGTTGCTCTTGTTGACATGGAGCGTGCATTTATCCCACCTCAACATTTTGTTAGACTTGTCCAACGCAGgtatatctcgacttacttggtgcttc-atctac-tcccaagatattagtaaagattggagatattcagtaacggtctagagctac-actgtttggattcagcaMapped 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|10233048|gb|BE801936.1|BE801936EST: CAACACTTCATTCGCTTGGTACAAAGAAG GATGGAAAGGCAACGTCGAGAGGAGGAGCTGAAGGGCCGATCCTCNNNNNN
genomic: CAACACTTCATTCGCTTGGTACAAAGAAGgtaatttgga ... tttactttagGATGGAAAGGCAACGTCGAGAGGAGGAGCTGAAGGGCCGATCCTCAAAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTCAACACTTCATTCGCTTGGTACAAAGAAGgtaatttggactaatttcttgaatggatctagatcccctctcattgggtgatctgttccctactctttattatttgttagcaactaattttttttttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgggtg