Sequence
atgc intronic sequence ATGC exonic sequenceGCACTCACAAGGTAAAGAGATTACTGATGCTGATATTCTAAACTGGGCAAACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAGgtataaaaccacctattgagttatgtgtgtgtacatgtgtgcttatatagttcttgctactcttaattcgacatttatttataacaatcatcagtcttaa...
Basic information
species | Glycine max |
transcript | GLYMA14G00820.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G00820.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os02g48740.1 (Oryza sativa), 5'ss of exon 12
GCACTCACAAGGTAAAGAGATTACTGATGCTGATATTCTAAACTGGGCAAACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAGgtat-aaaaccacctattgagttatgtgtgtgtacatgtgtgcttatatagttcttgctactcttaattcgacatttatttataacaatcatcagtcttaa
|| ||||| ||||| ||||||||||||||||| ||||| |||||||||| ||||||||| | |||||||||| ||||||||||| || |||||||| | | | || || | ||| || | || ||| ||| ||| || | || | | || || | | |
AGGATCCCAAGGAAAAGAAATTACTGATGCTGATATACTAAAATGGGCAAACAGCAAAGTGAAAGCATCAGGAAGAACATCTCAAATGGAAAGCTTCAAGgtgttattaatttctgtttaatta-----gttttaatttgttgttagataactccagttaataa-attttcttatcttctctcag----------------
upper sequence: GLYMA14G00820.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G010937_T01 (Zea mays), 5'ss of exon 12
GCACTCACAAGGTAAAGAGATTACTGATGCTGATATTCTAAACTGGGCAAACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAGgtataaaaccacctattgagttatgtgtgtgtacatgtgtgcttatatagttcttgctactcttaattcgacatttatttataacaatcatcagtcttaa
|| ||||| ||||| ||| ||||||||||||||||| ||||||| |||| ||||||||| | |||||||| |||| |||||| ||||||||||| ||| | | | | || | | | ||| | | | || | | || || || ||| | | ||
AGGGTCCCAAGGAAAAGAAATTTCTGATGCTGATATTCTAGACTGGGCCAACAGCAAAGTGAAAGCGTCCGGAAGAACATCTCGAATGGAAAGTTTCAAGgtgcccaacgaacaa--aacttcaattcctatttttgt-----cagaaaactccggttgct--tagtttcctgtttttccctttcag-------------
upper sequence: GLYMA14G00820.1 (Glycine max), 5'ss of exon 11
lower sequence: AT5G35700.1 (Arabidopsis thaliana), 5'ss of exon 12
GCACTCACAAGGTAAAGAGATTACTGATGCTGATATTCTAAACTGGGCAAACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAGgtataaaaccacctattgagttatgtgtgtgtacatgtgtgcttatatagttcttgctactcttaattcgacatttatttataacaatcatcagtcttaa
||||| ||||||||||| ||||| ||||| |||||||| |||||||| || | |||||||| |||| || ||||| ||| ||||| |||| |||| ||| | | | ||||| | |||| || || ||| || || || || || || | | || ||
ACACTCGCAAGGTAAAGAAATTACAGATGCAGATATTCTTAACTGGGCGAATAGGAAAGTGAAGAGAGGTGGCCGAACTAGTCAGGCTGATAGCTTCAGGgtaagtgttaaccaagtacgg-atgtg---attcatggagactcatc---ttcagaaacctaatagtttgatggttgcttttttctgatattag------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|163926266|gb|EH039161.1|EH039161EST: ACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAG GATAAGAATCTTTCTGGTGGCGTTTTCTTCCTTGAGCTTTTGAGTGCTGTG
genomic: ACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAGgtataaaacc ... gcttcatcagGATAAGAATCTTTCTGGTGGCGTTTTCTTCCTTGAGCTTTTGAGTGCTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCACTCACAAGGTAAAGAGATTACTGATGCTGATATTCTAAACTGGGCAAACAATAAAGTGAAAAGAGCAGGAAGAACTTCTCAAATGGATAGTTTCAAGgtataaaaccacctattgagttatgtgtgtgtacatgtgtgcttatatagttcttgctactcttaattcgacatttatttataacaatcatcagtcttaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC