Sequence
atgc intronic sequence ATGC exonic sequenceTGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgttgatctgcagctgaactcgctgacagtggatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag
Basic information
species | Glycine max |
transcript | GLYMA12G02200.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g42350.1 (Oryza sativa), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgt-ttgttgat-ctgcagctgaactcgctgacagtg-gatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag-------------------------------------
|||||| || || || |||||||| |||||||||||||| || ||||||||||| ||||| ||| |||| | ||||||||||||||||| || || ||||| | | ||| || | | || | | | | | | ||| | || | | ||| | || | || | |
TGAGTCGGTAGTGGTGAGGATAACAGGCTGCCCTAATGGATGCGCTAGACCATATATGGCAGAGGTTGGCTTTGTTGGTGATGGCCCAAACAGTTACCAGgtataggagatattgaaaatattttcctttaggctatgtttgtttggcttcattttctttta-gtttgtttttcgtcattgcgttttcttctttttatcttcactaaacatttcttttgtggccag
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G090338_T01 (Zea mays), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgttgatctgcagctgaactcgc----tgacagtggatagaaaagctcaaaagactataatgttcactgtttttt-cttatgatgcag------------------------------
|||||||||||||| ||||||||||| ||||||||||| || ||||||||||| ||||| |||||||| | ||||||||||||||||| || || ||||| || | || | | | | | || || | || | || | || | | |||||| |||| || |
GGAGTCTGTGGTTGTGAGGATAACTGGATGCCCTAATGGATGCGCTAGACCATATATGGCAGAGCTTGGTTTTGTTGGTGATGGCCCAAAAAGTTACCAGgtaacaagaatagtggcatattttgacacatcattttgattacattcacttggcaatcttacctatttagttttttttgtttattttgtatttattgcactctactctactgtggccatag
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G04590.1 (Arabidopsis thaliana), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgtt--gatctgcagctgaactcgctgacagtg-gatagaaaagct-caaaagacta---taatgttcactgttttttcttatgatgcag
|||||||| || |||| |||| || || || || || ||||| ||||| |||||||||||||| || ||||| || ||||| || || ||||||||||| | | || | |||| | || || || || | || || | | |||| ||| ||| || | |||||
CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttggagcacaagctcttgttactagtgatgagacagtatagtagtaagcaagcaggctaatattctgagttgttgtcggttgtgcag
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0004g02330.t01 (Vitis vinifera), 5'ss of exon 6
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgttgatctgcagctgaactcgctgacagtggatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag-----------------------------------------
||| ||||||||| | || ||||||||||||||||||||||||| ||||| |||||||| || |||||||| || |||||||| || || ||||||||||| | | | |||| | ||| | | || | || |||| || | |||| ||| | || |
TGAATCTGTGGTTATTCGGGTAACTGGCTGCCCTAATGGTTGTGCGAGACCTTACATGGCCGAACTTGGACTTGTCGGTGATGGTCCCAACAGCTATCAGgtaattaaacc----actgactgcattgaatttaaa---aagaactatgaaga---ggttgattactgcccttttagacaatatgggatatatttacactaaaatatttgttatggttttcaaacag
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S47_171V6.2 (Physcomitrella patens), 5'ss of exon 4
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttg---ttgatctgcagctgaactcgctgacag-tggatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag---------------------------------
||||| |||| || | || ||||||||||||||||||||||| || || |||||||| ||||||||| ||||||| ||||| || || ||||| ||||| | | | || | || | || | | || | | | || || | | | |||| || ||
AGAGTCCCTGGTGGTTCGCATTACTGGCTGCCCTAATGGTTGTGCAAGGCCGTACATGGCAGAGCTTGGATTAGTTGGCGATGGACCCAACAGCTACCAGgtataatttccaactttgacaaaaattattgttgccttaacagctatatttgcatgataatgctatg-gccacttttgagtacgacttgaatggtttggtgcatttctgttttctctctgtag
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S160_137V6.1 (Physcomitrella patens), 5'ss of exon 5
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttg--ttgatctgcagctgaactcgctgacagtggatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag-----------------------------
|| || |||| || || || || ||||||||||| || |||||||| ||||||||||| ||||| |||||||||||||| |||||||| ||||| ||||| | || || | | | |||| || | | | || ||| | | ||| | | |||| || ||| |
GGAATCGCTGGTGGTGAGAATTACCGGCTGCCCTAACGGGTGTGCTAGGCCATACATGGCAGAGCTCGGACTAGTTGGTGACGGCCCAAACAGCTACCAGgtataatttaatgtcttgtcgc-ttcgcaagcactctagttcacagaccaacatcagttttagttaatttttttcctttgtgaaacttagggtttcaatctgttgattgtggtgcag
upper sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ27223 (Selaginella moellendorffii), 5'ss of exon 5
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgttgatctgcagctgaactcgctgaca-gtggatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag
|| || |||| || | | || || || |||||||||||||| || ||||||||||| || |||||||| || || ||||| ||||||| |||||||| || | || ||| | ||| || || || | |
GGATTCGATGGTGGTGCGAGTCACCGGGTGTCCTAATGGTTGTGCGAGGCCATACATGGCAGAACTTGGACTGGTCGGAGATGGAGCAAATAGTTATCAGgtaattttctgtggtgctttttcaatttacacgtttatgtcaatggtag--------------------------------------Mapped 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|13311482|gb|BG405133.1|BG405133EST: CATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAG ATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCTTCGAAGTTT
genomic: CATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgttgat ... tatgatgcagATTTGGCTTGGAGGAAACCATAAACAAACATCATTAGCT-CGAAGTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgttgatctgcagctgaactcgctgacagtggatagaaaagctcaaaagactataatgttcactgttttttcttatgatgcag
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