Sequence
atgc intronic sequence ATGC exonic sequenceTAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgacttgaatttttctttcctgacattgtactttctttttccttttctggccaataatatgtatgacaatataacttataagcagtttgttgcc...
Basic information
species | Glycine max |
transcript | GLYMA10G05520.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g17570.5 (Oryza sativa), 5'ss of exon 6
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgacttgaattttt---ctttcc--tgacattgtac----tttctttttccttttctggccaataatatgt--atgacaatataact-tataagcagtttgt-tgcc------------------------------------
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TAAGTGTTTGTCAAAAGGAGCAGTTGACTTTCTAGTGAAGCCTATACGTAAGAATGAACTTAAGAACCTTTGGCAGCATGTTTGGAGACGATGCCACAGTgtaagtttgtttttttttgttggcctacctttaatgtgggatcaagtccccaactctccgtgtaactcatagtattttgattctaacttctttgtctgaatattttttatgtgactaatctgaatataatttgtctatttgtaattcag
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os07g49460.3 (Oryza sativa), 5'ss of exon 6
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgac-ttgaatttttctttcctg-acattgtactttctttttccttttctggccaataat--atgtatgacaatataacttataagcagtttgttgcc-------------------------------
|||||||||||||||||| ||||||||||| |||| || |||||||| |||||||| ||||| ||||| ||||||||||| |||||| | || ||||| ||||| || ||| | |||| | | ||| | ||| | | | | || | || || | | || | || || |
TAAGTGTTTGTCAAAGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACTTAAGAACCTATGGCAGCATGTGTGGAGACGGTGCCACAGCgtaagttgttgttggtccagtttttcttatatattagatgttcaggcaaatccatcaagtactgactgctgcttcaccattttatggttacaatatgtgatgactctaaactaaagttgttattttcaaattcag
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G095727_T03 (Zea mays), 5'ss of exon 6
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgacttgaatttttctt-tcctgacattgtactttctttttccttttctggccaataatatgtatgacaatataacttataagcagtttgttgcc-------------------------------
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TAAGTGTTTGTCGAAGGGAGCAGTTGATTTCTTGGTAAAACCACTACGTAAGAATGAGCTTAAGAACCTTTGGCAGCATGTTTGGAGGCGATGCCACAGTgtaagctgtttgtttttggtctagttttttctggatattttattccacgaaacatgaggcgtgatttctttgagtcctcactgtgtttcctttgtgatcactctgagttgaatttgcctctttggtactcag
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G005732_T02 (Zea mays), 5'ss of exon 3
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAG---AAGATGTCACAGTgtaagctgacttgaatttttctttcctgacattgtactttctttttccttttctggccaataatatgtatgacaatataact----tataagcagtttgttgcc
||||||||||| ||||||||||||||| |||| || || ||||| |||||||| ||||| ||||| ||||||||||| ||||| | | |||||||||||||| || | | || | |||||| |||||| | || | | ||| | ||||| | || | ||||| |
---ATGTTTGTCAAAAGGTGCTGTTGACTTTTTAGTCAAGCCTATACGTAAGAATGAACTTAAGAACCTTTGGCAGCATGTGTGGAGACAACGGTGTCACAGTgtaagttgttcatggtctggtttg---aatattgtaagttctttgacgttattcatgtttctctgggtaaaattgtataattactctaacaagagtttactta-
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G095727_T04 (Zea mays), 5'ss of exon 7
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgacttgaatttttctt-tcctgacattgtactttctttttccttttctggccaataatatgtatgacaatataacttataagcagtttgttgcc-------------------------------
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------------------AGCAGTTGATTTCTTGGTAAAACCACTACGTAAGAATGAGCTTAAGAACCTTTGGCAGCATGTTTGGAGGCGATGCCACAGTGTAAGCTGTTTGTTTTTGgtctagttttttctggatattttattccacgaaacatgaggcgtgatttctttgagtcctcactgtgtttcctttgtgatcactctgagttgaatttgcctctttggtactcag
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G033962_T01 (Zea mays), 5'ss of exon 3
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAA---GATGTCACAGTgtaag-----------ctgacttgaattttt--ctttcctgacattgta-ctttctttttccttttctggccaataatatgtatgacaatataacttataagcagtttgttgcc-----------------------------------------------------------
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---ATGTCTGTCAAAAGGTGCTGTTGACTTTTTGGTCAAGCCTATACGTAAGAATGAACTTAAGAACCTTTGGCAGCATGTATGGAGACAACGGTGTCACAGCgtaagttgttcatggtctggtttgaatattatactttcttgaaaaaaaaactgtcaagtgataattgttgctt-cagtttcaaggattactcaagttttttttactttattcatggttctctgggtaaatttgtgtatttactctaacaagagtttacttgtttggaactcag
upper sequence: GLYMA10G05520.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G02810.1 (Arabidopsis thaliana), 5'ss of exon 4
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaag--ctgacttgaatttttctttcctgacattgtactttctttttccttttctggccaataatatgtatgacaat-ataacttataagcagtttgttgcc------------------------------------------------------------------------
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TAAGTGCTTATCGAAAGGAGCTGTTGACTTTCTTGTTAAGCCAATAAGAAAAAATGAGCTTAAGATCCTTTGGCAGCATGTTTGGAGAAGATGCCAAAGTgtatgtccttgctcatatatgattaatctgaaa----acctgttggtacaactggtgataagtagtaaactagaaattcatggtctaattgtggattggtatcttctttttttttttccacatgattggtatcttactttttggtttctcatggttttccttgtttcttgttcagMapped 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|193648563|gb|FK599256.1|FK599256EST: AGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGT TCTAGTGGGAGTGGCAGTGAAAGTGGCACACAAACCCAGAAGTCTGTAAAA
genomic: AGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgac ... ttccctacagTCTAGTGGGAGTGGCAGTGAAAGTGGCACACAAACCCAGAAGTCTATAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGTGTTTGTCAAAGGGTGCTGTTGACTTTCTAGTTAAACCCATACGGAAGAATGAGCTTAAAAACCTGTGGCAGCATGTTTGGAGAAGATGTCACAGTgtaagctgacttgaatttttctttcctgacattgtactttctttttccttttctggccaataatatgtatgacaatataacttataagcagtttgttgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG