Sequence
atgc intronic sequence ATGC exonic sequenceTCTTTACCACAGAACCTTATGCTTGTGATCCTTCTAGTCTCCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctgctttaaagtttcctttctgcataccgctagtatttgcatatttatataaggactgtgatgagtaaatgtagggtgttgaccctgatattac...
Basic information
species | Glycine max |
transcript | GLYMA03G40330.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40330.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g22700.1 (Oryza sativa), 5'ss of exon 4
TCTTTACCACAGAACCTTATGCTTGTGATCCTTCTAGTCTCCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctgctttaaagt--ttcctttctgcataccgctagtatttgcatatttatataaggactgtgatgagtaaatgtagggtgttgaccctgatattac
||||||| || ||||||||||| ||||| || || ||||||||| |||||| |||||||| ||||||||||| |||||| | ||||| ||| ||| ||| | || ||| | | | || ||| || | |||| || | | | | |||| | || | | |
TCTTTACAACTGAACCTTATGCATGTGAACCATCAAGTCTCCCAGCATATCCTCCAAGCAAAGAAATGGATGCAAAACGAAGAGATGAAGAAGCCAGACGgtttgtcaccttgatactcattagttttattatttgtttgttattcgctttggtccttggctgtctctct-agtactggacactctgtggttgtagcactt-
upper sequence: GLYMA03G40330.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G156251_T01 (Zea mays), 5'ss of exon 5
TCTTTACCACAGAACCTTATGCTTGTGATCCTTCTAGTCTCCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctgctttaaagtttcctttctgcataccgctagtatttgcatatttatataaggac-tgtgatgagtaaatgtagggtgttgaccctgatattac-----
| ||| | || || |||||||||||| | ||||| ||||| |||| |||||| ||||||||||| |||||||| || | | || || || ||||||| | || |||| ||||| | | | ||| | | | ||| | |||||| | | ||| | | | | || | | || ||
TTTTTTCAACCGAGCCTTATGCTTGTAACCCTTCAAGTCTGCCAACATATCCACCAAGCAAGGAGATGGATGCCAAGTTAAGAGACGAGGAGGCTAGAAGgtgtgtcacattta-----ccctttttactttttgctgg-acatacatgtggatataaacatgtttgaggctttgagccatacctacaacatttacatcacatgtt
upper sequence: GLYMA03G40330.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G052206_T02 (Zea mays), 5'ss of exon 5
TCTTTACCACAGAACCTTATGCTTGTGATCCTTCTAGTCTCCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctgctttaaagtttcctttctgcata-------ccgctagtatttgcatatttatataaggactgtgatgagtaaatgtagggtgttgaccctgatattac
||||||| || ||||||| ||| ||||| || || ||||| ||||||||||| |||||||| ||||| |||| ||| || | || || ||| ||| ||| | || ||| | || | | | || || | || | ||| || | | || | | || | |||||| | | ||
TCTTTACAACTGAACCTTTTGCATGTGAACCATCGAGTCTTCCAAAATATCCTCCAAGCAAAGAAATAGATGTGAAAAGAAGAGACGAAGAAGCCAGACGgtttgtcaccttgccacttatttcattacttaggatgatccagtgtcataaacttatctactttgagtttgcagtaacaaact------tgttgatctataaatgc-
upper sequence: GLYMA03G40330.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0030g01260.t01 (Vitis vinifera), 5'ss of exon 8
TCTTTACCACAGAACCTTATGCTTGTGATCCTTCTAGTCTCCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctg-ctttaaagtttcc-----tttctgcataccgctagtatttgcatatttatataaggactgtgatgagtaaatgtagggtgttgaccctgatattac
|||| || || |||||||||||||||| || ||||| || || ||||||| ||||||||||| |||||||| || | || ||||||||| |||||| | || |||| || ||| || || || | | || | || |||| | | |||| | | || | ||| |
TCTTCACAACGAAACCTTATGCTTGTGAACCATCTAGCCTTCCGCAATATCCTCCAAGCAAGGAGATGGATGCCAAGAGGCGAGATGATGAAGCTCGAAGgtgtggttgacttttaactttgtataaacttttgaattcatgttgtttctgagagtttactttataactgcaactattactttacataaattgcatatag------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|23064160|gb|BU578933.1|BU578933EST: CCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAG AGTAAGAGCTGCAGGCAAAGCTCAGGCTGATGGTCCAAAGAAGCATCGAAC
genomic: CCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctgc ... gaatgttcagAGTAAGAGCTGCAGGCAAAGCTCAGGCTGATGGTCCAAAGAAGCATCGAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTTACCACAGAACCTTATGCTTGTGATCCTTCTAGTCTCCCAAAATATCCCCCAAGCAAGGAAATGGATGCTAAACGACGGGATGATGAAATGAGAAGgtatttctgctttaaagtttcctttctgcataccgctagtatttgcatatttatataaggactgtgatgagtaaatgtagggtgttgaccctgatattac
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA