Sequence
atgc intronic sequence ATGC exonic sequenceCCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtactaaacag
Basic information
species | Glycine max |
transcript | GLYMA07G11470.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 5'ss of exon 7
---CCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggcc-atacatttcaatg-acttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtactaaacag
|| ||||| | || || || |||||||| ||||||||||| |||| ||| |||||||||||||||||||| | || || ||||| |||||||| | || ||| || | | | | | ||| || || |||| | || | | | | | | || |
TGAACGCGAACCAATA---GCACAGCCTATCTCAAAGCTTGAGTTTGAGTTCGAGAAGAGGAAATTGGCCAAAGATGATGTCCGGGAATTAATTTACCGAGAGgtgccactgatgaattcttttgtgaatattacgacagagctgccacttgact-ctttactgtactaatatacttgttaaatct-ctttag----------
upper sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os01g45620.1 (Oryza sativa), 5'ss of exon 6
---CCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtactaaacag
|||||||| | |||||||| ||||| |||||||||||||||||||| || || | || ||||||||||| | || || ||||| |||||||| || | | |||| | | | | ||| |||| ||||| || | ||| ||| | | | || | ||
GGAACGTGAACCCATA---GCACAACCCATCTCAAAACTCGAGTTTGAGTTTGAGAGAAGGAAGCTAGCAAAAGATGATGTCCGGGAATTAATTTACAGAGAGgtactgctaatcttttctaccatgaggat---tttggtaata----gtcttttctt--atgcatggtgtctctctctctctctatctttag-------
upper sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G062761_T01 (Zea mays), 5'ss of exon 7
---CCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtactaaacag
|||||||| | ||||| || ||||| || || ||||||||||||| | | ||| |||||||||||||||| |||| |||||||| ||||||||| || || || ||||| ||| | | | | | | | | | || | | | |||| | | ||
TGAACGTGAACCCATA---GCACAACCTATCTCAAAACTTGAATTTGAGTTTGAGAAGCGGAAACTGGCCAAAGATGATGTCCGAGAATTGATTTACCGAGAGgtactattgctcaattacatt-cttgacatcattgtagagctgctcctttcattactttt--ctagctctt-----gttacctctctttag-------
upper sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 7
---CCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtactaaacag
|| ||||| ||| || || || ||||||||||| || |||||||||||||| | |||||| | ||||||||| | |||||||| ||||| |||||||| | | | | | || || | || | | | | | |||| | | | || | | | |||
AGTGCGGGAACCATCG---ACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAATTGACAAAAGATGATATCAGAGAGTTAATTTACCGAGAGgt--gatgagccttctatatatctcttctttggtttagattctcctctcttggtgattctaatggattacttaaaaaacatag---------------
upper sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 7
---CCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtact-aaacag
|||||||| || |||||||||||||||||| || ||||||||||||||||| || ||||| | |||||||||||||| ||||| || ||||||||||||||| ||| |||| || || || | || | | || || || | || |||| | || | ||| | | ||||||
AGATCGTGAACCTTC---CACTCAACCCATTTCAAAACTTGAGTTTGAGTTTGAGAGAAGGAAATTAACAAAAGATGATGTTAGGGAGTTAATATATCGAGAGgtatggggtcaca--------actttctttgatggtattgtgggttttatgctg-tcagta---gagttataacaaatt-tttgtttaaattgaaacagMapped 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|208157185|gb|GD955871.1|GD955871EST: AGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAG ATTTTAGAGTATCATCCTCGGATGCTTGAAGAATATCTTCGTTGTGGAGAA
genomic: AGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccat ... tactaaacagATTTTAGAGTATCATCCTCGGATGCTTGAAGAATATCTTCGTTGTGGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCGTGAACCGTCGTCCACTCAACCCATTTCAAAGCTCGAGTTTGAGTTTGAGAGGAGAAAATTGGCCAAAGATGATGTTAGAGAGTTGATTTATCGAGAGgtatggccatacatttcaatgacttgattcaatttaataatttattgtcttctcctctgtgcctgggtaataatgagttatacatttgtactaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG