Sequence
atgc intronic sequence ATGC exonic sequenceATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtatgccaagacacctatgttgatcttgttttagtaaaattcttcttttctagaaattttaaaacacgaatggttttgtttgagatgttatatttggttc...
Basic information
species | Glycine max |
transcript | GLYMA04G04810.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g10640.1 (Oryza sativa), 5'ss of exon 4
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgta----tgccaagacacctatgttgatcttgttttagtaaaattcttcttttctagaaattttaaaacacgaatggttttgtttgagatgttatatttggttc
||| | || |||||| | || ||||||||||| |||||||||||||| || ||||||||||| |||||||||||||||||||||||||||||||||||||| | | | | | || | | || | | | | | | | | |||| | || | |||| || || ||| || |||| |
TTTTGATGAAGTTGTTGCGGTTACTGGTGATGGCACAAATGATGCTCCTGCTCTTCATGAAGCTGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtgattttcctcaaagatagttgatagtgttccccttgcatgaacaatataattaatgaattgcatcactt---cgatttttttagaagtgt-atttttgtggc
upper sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G006977_T01 (Zea mays), 5'ss of exon 4
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtatgccaagacacctatgttgatcttgttttagtaaaattcttcttttctagaaattttaaaacacgaatggt-tttgtttgagatgttatatttggttc
| | | || ||||| | || |||||||| || ||||| ||||| || || |||||||| || |||||||| ||||||||||||||||||||||| |||||| || | | || || | | ||| | | | || | | | | || || | | | | | || || | |
ACTCTACGAAGTTGTGGCTGTGACTGGTGACGGAACAAACGATGCACCTGCTCTTCATGAGGCTGATATTGGGCTTGCAATGGGCATTGCTGGAACCGAGgta-atttcgagattttccttatgtttctaaaaataactagccatgtcattccaattatcacactactgctgatatcttgtagtaatcaccgatatcaaac
upper sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G118919_T01 (Zea mays), 5'ss of exon 2
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgta-tgccaag---acacctatgttgatcttgttt--tagtaaaattcttcttttctagaaattttaaaacacgaatggttttgtttgaga-tgttatatttggttc
|||| | || |||||| | || || || ||||| ||||| |||||||| || || || ||||| || ||||| ||||| |||||||||||||| ||||||||| | | | | ||| || | | |||| |||| || || | | || | | | | | ||| | | | | |
ATTTGATGAAGTTGTTGCGGTCACCGGCGATGGCACAAACGATGCTCCTGCGCTACACGAAGCCGACATTGGGCTTGCGATGGGCATTGCTGGCACTGAGgtactatctacttcgtgttcctaatgacgacattagacattggaattgctcttacatataactgt--ggtcagtattaagtgtacatcagagtatcagacta-----
upper sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G317270_T01 (Zea mays), 5'ss of exon 2
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtatgccaagacacctatg--ttgatcttgttttagtaaaattcttcttttctagaaattttaaaacacgaatggttttgtttg--agatgttatatttggttc
||| | || ||||| | || || || ||||| || || ||||| || || || || ||||| || ||||| ||||| |||||||||||||| ||||||||| | |||| | | | | || | ||| | || || | | | || | | | | |||||| | | || | ||||
GTTTGACGAAGTTGTCGCGGTGACCGGCGATGGCACGAACGATGCACCCGCGCTACACGAAGCCGACATTGGGCTTGCGATGGGCATTGCTGGCACTGAGgtacgtacgtacactattcactccaattcattctcgtagacttattacactattaattcttctgatgtctgtttctaatgtttgtttgtttttttgtttgaag-
upper sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G27770.1 (Arabidopsis thaliana), 5'ss of exon 4
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtatgccaagacacctatgttgatcttgttttagtaaaattcttcttttctagaaattttaaaacacgaat---ggttttgtttgagatgttatatttggttc----------------------
||||| || || ||| |||| || |||||||| ||||||||||||||||||||||||||||| ||||||||||| |||||||||||| | ||||||||||| || | | || ||| | | ||| | || ||| ||| ||||| | ||| | || | |||| | | || | | || |
GTTTCAGGAAGTCGTTGCAGTGACAGGTGATGGAACAAATGATGCTCCAGCACTTCATGAAGCTGATATTGGACTCGCAATGGGCATTTCCGGAACTGAGgtgtgt-actcaatcttcattgtccctatttcatta----tctggtttgtgagaaaatctaacaattgagtttgggttctcatggaaggacaacacttacatattctatttttcaattttcgtag
upper sequence: GLYMA04G04810.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g09150.t01 (Vitis vinifera), 5'ss of exon 4
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgt-atgccaagacacc--tatgttgatcttgttttagtaaaattcttctt-----ttctagaaattttaaaacacgaatggttttgtttgagatgttatatttggttc
||| |||| |||||| |||| ||||| |||||||||||||||||||| ||||||||||||||||| ||||| ||||||||||||||||||||||| ||||| || | | | || | || |||| | | || || || || | | || | ||| | || |||| || | | | ||
ATTGGAAGAAGTTGTTGCAGTGACTGGGGATGGTACAAATGATGCTCCTGCACTTCATGAAGCAGACATTGGGCTTGCAATGGGCATTGCTGGAACAGAGgtgatacataaatactgttcctttaatctagcatgagagaagtttcactaagatgtggttgatttactaacttataaaatcttttactt-attttctgaat-------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|6566478|gb|AW234123.1|AW234123EST: CACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAG GTAGCAAAAGAAAGTGCCGATGTAATAATTCTAGATGATAACTTTTCAACT
genomic: CACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtatgccaag ... tcaaattcagGTAGCAAAAGAAAGTGCCGATGTAATAATTCTAGATGATAACTTTTCAACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTCAAGAGGTTGTTTCAGTAACTGGTGATGGTACAAATGATGCTCCAGCACTTCATGAAGCAGATATTGGACTTGCAATGGGCATTGCTGGAACTGAGgtatgccaagacacctatgttgatcttgttttagtaaaattcttcttttctagaaattttaaaacacgaatggttttgtttgagatgttatatttggttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA