Sequence
atgc intronic sequence ATGC exonic sequenceTGAGAAAAAAGTTATCATTATCCACCGTCTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAGGGTTCACTACCACCAAAGgtttgattatgactcttccttgaccttttatgctttatctggtggcacaatcctaatataagtgttgcattgcag
Basic information
species | Glycine max |
transcript | GLYMA09G39380.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39380.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv15s0046g02290.t01 (Vitis vinifera), 5'ss of exon 10
TGAGAAAAAAGTTATCATTATCCACCGTCTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAGGGTTCACTACCACCAAAGgtttgattatgactcttccttgaccttttatgctttatctggtggcacaatcctaatataagtgttgcattgcag
||| || || || |||||||| ||||| |||||||| ||||| ||||||||||||||||| || |||||||||||||| || |||||||| || || ||||| || | | | || ||| | | | || || | |||||| || ||| |||||||
TGAAAAGAAGGTGATCATTATTCACCGACTTCATCAAATTCTGGAGCCTTTCATGCTCAGACGCCGTGTTGAAGATGTGGAAGGTTCACTTCCTCCTAAGgtatg--tgttgttagtctttggtggtgaagccctttgatgaggctgattctctaatacaaacattgaattgcag
upper sequence: GLYMA09G39380.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S158_37V6.1 (Physcomitrella patens), 5'ss of exon 12
TGAGAAAAAAGTTATCATTATCCACCGTCTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAGGGTTCACTACCACCAAAGgtttgattatgactcttccttgaccttttatgctttatctggtggcacaatcctaatataagtgttgcattgcag------------------------------------------------------------------------------------------------
|||||| || ||||| |||| ||| | ||||||||||||||||||||||||||| | ||||||||||||| ||||| || || || || || || ||||| | || | || | | | ||| | || | | | | | || | |||| |
TGAGAAGAAGGTTATTGTTATTCACAGGCTTCATCAGATTCTTGAGCCTTTCATGTTGCGGCGTCGTGTTGAGGATGTGGAAGGATCTCTTCCTCCGAAGgtggtaccttgtttattaac--aattatagtgcaaaaaatgaattccgactgtcagttcttgtcatccattcatgtttagtctggttttaatttatttataatattggctatcagtgaacaacgtattcttcgaagaggatcctcacgcgaatgggatgctggttttacagMapped 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|193344045|gb|FK311959.1|FK311959EST: TCATGCTCAGGCGTCGTGTTGAAGATGTTGAGGGTTCACTACCACCAAAG GTCTCTATAGTTTTACGATGTAAGATGTCAGCTGTCCAGAGTGCCATTTAT
genomic: TCATGCTCAGGCGTCGTGTTGAAGATGTTGAGGGTTCACTACCACCAAAGgtttgattat ... tgcattgcagGTCTCTATAGTTTTACGATGTAAGATGTCAGCTGTCCAGAGTGCCATTTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGAAAAAAGTTATCATTATCCACCGTCTTCATCAGATTCTTGAGCCTTTCATGCTCAGGCGTCGTGTTGAAGATGTTGAGGGTTCACTACCACCAAAGgtttgattatgactcttccttgaccttttatgctttatctggtggcacaatcctaatataagtgttgcattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG