Sequence
atgc intronic sequence ATGC exonic sequenceTCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
Basic information
species | Glycine max |
transcript | GLYMA06G01520.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 5'ss of exon 9
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
| || ||||||||||| || || || ||||| ||||| || |||||||||||||| ||| |||| | ||||| |||||||| | || ||||| || ||||||| || ||| || || || | | | | | ||| | || | | | || | || | | | ||| | | ||| | | | | | ||
TTACCAATTTCATGTCAGACATAGCAGATGAATTCAAGATAGTTGTTGTTGAAGCTATACGATCTCTATGCCTTAAGTTTCCCCTGAAGTATCGTTCAATgtatgtaaatcttaattcggtgtt-gatgacatttacattcttt-tagtgccgtatgttttgactatc-agttgcatttggtgtc-caatgctcttcatttttttttcttctatag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 9
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
| || || || ||||| || || ||||||||||| || |||||||||||||||||||||||||| ||||| ||||||| ||| | |||||||| || ||||||| | | | || | | | || | | | | | | | ||| | || || | | ||| | || || |
TGACCAACTTTATGTCAGACATAGCTGATGAGTTTAAGATTGTTGTTGTTGAAGCAATAAGATCCCTGTGCTTGAAGTTCCCTCTGAAATATCGCTCATTgtatgtatatagaagcgtgttt----gcactattcttgttaaacatcgtaaactacctttttcatctata-agcattaattttcatttatctgttccag-----------------
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G036034_T01 (Zea mays), 5'ss of exon 9
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
| || || || ||||| || || ||||||||||| || |||||||||||||||||||||||||| ||||| ||||||| ||| | |||||||| || ||||||| | | || || | | | | || | || | | | | | | ||| | || || | | ||| | || || ||
TGACCAACTTTATGTCAGACATAGCTGATGAGTTTAAGATTGTTGTTGTTGAAGCAATAAGATCTCTGTGCTTGAAGTTCCCTCTGAAATATCGCTCATTgtatgtatatagaagcatgtcttcttgcgctagtcttgttaaatatcataaactacctttttcatctata-agcattaatttccatttatctgttttag-----------------
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G012501_T02 (Zea mays), 5'ss of exon 7
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccata-tgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
| || |||||||||||| || || ||||| ||||| || |||||||||||||| ||| | || |||||||||||||| || |||||||||| || |||||||| | | | |||| || | | | || | | | | | || | | | || |
TTACCCTTTTCATGTCTGACATAGCAGATGAATTCAAGATAGTTGTTGTTGAAGCTATACGGTCTTTGTGCCTGAAGTTCCCACTAAAATATCGCTCAATgtatgtgaacaactgaaagagtgttgattctttgccttcaattctactgctttgactatgtcttctgtctttcag------------------------------------------
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgt---gtccctgaatatagtttttg-actccccacat--gccatatgttacatcgtgcat-atttatttcctagaggaatgttttatgatgatggtttgt-attctgctatta--ttttcag------
| || ||||| ||||| |||||||||||||||||||||||||| || || || ||||||||||| ||||| |||| || || | ||||| |||| |||| || || | | | | |||| | | | ||| | | | || || ||| | | | || || |||| | ||| || | ||| |||| | ||||||
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttctatttttttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 9
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccatatgtta-catcgtgcatatttatttcctagaggaatgttttatgatgat---ggtttgtattctgctattattttcag---------------
| |||||||||||||| |||||||||||||| |||||||||||||| || ||||| || |||||||||||| ||||||||||||| || ||| || | |||| ||| || |||||||| | | | || | | | ||| | ||| || | ||| | || ||| | | ||| | || | |
TTACAAATTTCATGTCAGATATTGCTGATGAATTCAAAATTGTTGTAGTGGAAGCCATCAGATCATTGTGCTTGAAGTTTCCTTTGAAGTATAGAGCCTTgtaagtgat-----atcctgtttttgatgtcatcattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcag
upper sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S276_96V6.1 (Physcomitrella patens), 5'ss of exon 9
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaa-tatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
|||| || |||||||| |||||||||||||||||||||||||| || || ||||| || | || | || || ||||| ||| ||| ||||| | ||| || || | || |||| | | || || |||| | | | | | ||| | |||| | ||| |||| | || |||
TCACGAACTTCATGTCCGATATTGCTGATGAGTTCAAAATTGTGGTGGTGGAAGCCATCCGCTCTCTTTGTCTCAAGTTCCCTCAAAAGTATCGCGCATTgtgagtttcgcaaaaatataaacctataaacctattgtga-atatataa-acctattgtgaatatattgtagaatg-ttctttgtgatatttccttcggttcc--------------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|151397771|gb|EV267644.1|EV267644EST: GAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCT GATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAA
genomic: GAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtcc ... ttattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG