Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGAACTGGGTTTTACATTCTCATTCCCAGTGAGGCAAACATCGATTGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTGgtaattcttgtcaacctgattacattatattcaactttatttgggcaaccattttttcttctagtcatttattttgattgatctatcatgtatttgttca...
Basic information
species | Glycine max |
transcript | GLYMA05G35890.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35890.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os05g45590.1 (Oryza sativa), 5'ss of exon 3
AAGAGAACTGGGTTTTACATTCTCATTCCCAGTGAGGCAAACATCGATTGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTGgt-aattcttgtcaacctgattacattatattcaactttatttgggcaaccattttttcttctagtcattt------attttgattgatctatcatgtatttgttca-------------------------------------------------------------------------------------
|||||||| || ||||| ||||| |||||||| | |||||| || ||||||||||| ||||| || || |||||||| ||||| ||||| || ||| | |||| | | |||| | | | | | || | || | | || | |||| | | | ||| || | || | | || |
GAGAGAACTTGGCTTTACGTTCTCTTTCCCAGTAAAGCAAACTTCAATTGCATCTGGCACTCTTATTAATTGGACTAAGGGTTTTTCGATTGATGAAACGgttagatcttattattatgatcttaacaagtata--tgcatataggtagcaatatactcttacaaaggatagacaagagtttccttttcccattggaaactatttaattctttactggaaaaccttctcgctcatgattgttacatattcctctgggatgtaagaattatttgcttattgctgtaaagtcag
upper sequence: GLYMA05G35890.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g52450.2 (Oryza sativa), 5'ss of exon 3
AAGAGAACTGGGTTTTACATTCTCATTCCCAGTGAGGCAAACATCGATTGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTGgtaattcttgtcaacctgattacattat---attcaactttatttgggcaaccattttttcttctagtcatttattttgattgatctatcat-----gtatttgttca---------------------------------------------------------------------------------------
||||||||| |||||||||||||| || ||||||| |||| ||| | |||||||| ||||| || |||||||| || |||| ||||| || |||| | | |||| | | || | | | | || | | || || | | || | || | | | || | | ||||
AAGAGAACTAGGTTTTACATTCTCCTTTCCAGTGAAACAAAAATCATTGGCATCTGGCACTCTTATCAAGTGGACGAAGAGTTTTGCAATTGATGAAATGgtcagttttgttacctcacatatgtaaaccaaatgaaaatcctaaggaaggatatccagcttcattgtgaatttaaaaaaaaaacatgtcgtcctggatggaaattcaccaattgtgaattctcttttagttctgttatatcttatatatccaattagttgtgtataacatacttacttgttgctttgaaggcag
upper sequence: GLYMA05G35890.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G856653_T01 (Zea mays), 5'ss of exon 3
AAGAGAACTGGGTTTTACATTCTCATTCCCAGTGAGGCAAACATCGATTGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTGgtaattcttgtcaacctgattacattatattcaactttatttgggcaaccattttttcttctagtcatttattttgattgatctatcatgtatttgttca-------
|| ||||||||||| || || || ||||||||| |||||||| || |||| ||||||||||| |||||||| ||||| || || | | ||||| ||| || |||||| | | ||||| || | | || | ||| | ||| || | | | | | | | |
GAGGGAACTGGGTTTCACCTTTTCTTTCCCAGTGCACCAAACATCTATATCATCGGGGACTCTAATTAAGTGGACCAAAGGATTTTGCATCAATGGCACGgtaaa-------aacaagaatacatttgttcctactttgttgactatattacttatacttatttatattaccagtgccttggccagaagctgactatgctgccaagaMapped 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|9986079|gb|BE660187.1|BE660187EST: CATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTG GTTGGTGAAGATGTGGTGGGAGAACTAACCAAGTCCATGGAAAAAATTGGC
genomic: CATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTGgtaattcttg ... ttgtttgtagGTTGGTGAAGATGTGGTGGGAGAACTAACCAAGTCCATGGAAAAAATTGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGAACTGGGTTTTACATTCTCATTCCCAGTGAGGCAAACATCGATTGCATCTGGGACTCTAATAAAGTGGACTAAAGGTTTCAATATTGAAGATGTGgtaattcttgtcaacctgattacattatattcaactttatttgggcaaccattttttcttctagtcatttattttgattgatctatcatgtatttgttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG