Sequence
atgc intronic sequence ATGC exonic sequenceGTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattttctgttttttacttttaattacaaaactgtttccttacttccaatctatttcctgttttgaaatatgtgttcaaaactttccaccttgattcattcttatgtggatgcag
Basic information
species | Glycine max |
transcript | GLYMA18G03270.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G03270.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g61120.1 (Oryza sativa), 5'ss of exon 10
GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattttctgttttttacttttaattacaaaactgtttccttacttccaatctatttcctgttttgaaatatgtgttcaaaactttccaccttgattcattcttatgtggatgcag
|||||||||||||||| || || ||||| | |||||||| || ||||| ||||||||||||||||| || ||||| ||||||||||| | || | | || | || ||| || ||| ||| | | ||| | | ||||| | || |||| | | | | ||||| |
GTTACTGGAGAGTTGCGTGATGATCTGACTTGTTGGGATGCTCTTCGAGCAGCATTGCCCGTTGGAACAGTTAGTGGTGCACCAAAGgtaaggaaatacat-------------gttggcaccgtatgg--------------ttgcatcacctgaatgctg-tttcagaaagaaaacgagaaacactctgccaactcaatatatct------atatgcgc----------------------------------------
upper sequence: GLYMA18G03270.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g15780.1 (Oryza sativa), 5'ss of exon 9
GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattt--tctgttttttacttttaattacaaaactgtttccttacttccaatctatttcctgttttgaaatatgtgttcaaaactttccaccttgattcattcttatgtggatgcag
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GTGAGTGGAGAGTTGGATGATCATCTCCAAAGTTGGGATGCCCTGCGAGCCGCGTTGCCTGTTGGAACAGTTAGTGGAGCACCAAAGgtatgttgcctac--aatctccttatttggatctagtgatgtg----ctgtccaacctccattccgtcttttttttaagcatgtttgccaaatttattctttgtgt----------------------------------------------------------------------
upper sequence: GLYMA18G03270.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G161337_T03 (Zea mays), 5'ss of exon 2
GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattttctgttttttacttttaattacaaaactgtttccttacttccaatctatttcctgttttgaaatatgtgttcaaaactttccaccttgattcattcttatgtggatgcag
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GTTAGTGGACAGTTGGATGATCATCTCCAGAGTTGGGATGCCTTGAGAGCTGCCTTGCCCGTTGGAACAGTCAGTGGTGCACCAAAGgt--gaagttgtttccaatattcttatttggatcttgaaccttcactcatgtaa---tatattttttgtgtgacatgtttgc---caaa----ttttctgcctcttgatata--------------------------------------------------------------
upper sequence: GLYMA18G03270.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G003109_T01 (Zea mays), 5'ss of exon 10
GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattttctgttttttacttttaattacaaaactgtttcctta----cttccaatctatttcctgttt---tgaaatatgtgt-tcaaaactttccaccttgattcattcttatgtggatgcag
|| || || ||| | | || || | || |||||||||| || |||||||||||||| |||||||| || |||||||| |||||||| || | | | || || || |||| | | ||| | | | || | || || || | |||| | | | | || ||| || || | || ||| ||| |||| || ||| | | |||| |||||| ||| |
GTCACCGGTGAGCTACGTGATGATCTTACGTGCTGGGATGCGCTACGAGCTGCATTGCCAGTTGGAACAGTTAGTGGAGCTCCAAAGgt----aactcgttgaaattggttata---aacttattgtaaatttacgagtatatattagtaagcttttagaaacatgtaataattaggatatgtcattaatatttttcattgcatgaccttttttcctgaataatctgtctttgagctttttcttttgattaattaaccag---------
upper sequence: GLYMA18G03270.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G55870.1 (Arabidopsis thaliana), 5'ss of exon 10
GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattttctgttttttacttttaattacaaaactgtttccttacttccaatctatttcctgttttgaaatatgtgttcaaaactttccaccttgattcattcttatgtggatgcag
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GTGATTGGAGAGTTGCAAGAGAATCTGACTTGCTGGGACACGCTTCGTGCTGCTTTACCCGTTGGAACCGTTAGCGGAGCTCCAAAGgcacattaaataactggctagttattacataagttatcattacctcttgagtgtctgatcgttaagagtatctctcttgtgacag-----------------------------------------------------------------------------------------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|193338190|gb|FK304293.1|FK304293EST: ATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAG GTGAAGGCGATGGAGTTGATTGATGAGCTGGAGGTGACAAGGAG
genomic: ATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaatt ... gtggatgcagGTGAAGGCGATGGAGTTGATTGATGAGCTGGAGGTGACAAGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTACTGGAGAGTTGCAAGAGCATTTGACTAGCTGGGATGCCCTGCGAGCTGCATTGCCCGTTGGAACTGTCAGTGGAGCACCAAAGgtttgtaattttctcgacttctttttagtcaactacgaatgagaaaacgtttttgttttcattttctgttttttacttttaattacaaaactgtttccttacttccaatctatttcctgttttgaaatatgtgttcaaaactttccaccttgattcattcttatgtggatgcag
- - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA