Sequence
atgc intronic sequence ATGC exonic sequenceTTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
Basic information
species | Glycine max |
transcript | GLYMA11G12610.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 9
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
| || ||||| ||||| || ||||| ||||| ||||| |||||||| || || || |||||||| ||||||||||| ||||| |||||||| | || |||| ||| || | |||| ||||| | | ||| | || | || | ||| | || || || || || |
TGACCAATTTTATGTCGGACATTGCCGATGAATTCAAGATTGTTGTCGTAGAGGCCATAAGATCCTTGTGCTTGAAGTTCCCCCTAAAATATCGGTCACTgtacgtagaa--tagcgtata---ttcttatacagaaatttttaaagatccagaactagc-ttgtcatcagaacattgaactttgttg-tgtttgcag------------------
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 9
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
| || || || ||||| || || ||||||||||| || |||||||||||||||||||||||||| |||||||||| |||||| | |||||| | || ||| ||| | | | | | ||| | | | | | | | ||| || ||| | | || ||| || | | ||| |||
TGACCAACTTTATGTCAGACATAGCTGATGAGTTTAAGATTGTTGTTGTTGAAGCAATAAGATCCCTGTGCTTGAAGTTCCCTCTGAAATATCGCTCATTgtatgtatatagaagcgtgtttgcactattcttgttaaacatcgtaaactaccttt------ttcatctataagcat----taattttcatttatctgttccag------------
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G036034_T01 (Zea mays), 5'ss of exon 9
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
| || || || ||||| || || ||||||||||| || |||||||||||||||||||||||||| |||||||||| |||||| | |||||| | || ||| ||| | | | | ||||| | | |||| |||| | | | ||| | | | | ||| || | | ||| || |
TGACCAACTTTATGTCAGACATAGCTGATGAGTTTAAGATTGTTGTTGTTGAAGCAATAAGATCTCTGTGCTTGAAGTTCCCTCTGAAATATCGCTCATTgtatgtatatagaagcatgt---cttcttgcgctagtcttgttaaatatcata---aactacctttttcatctataagcattaatttccatttatctgttttag------------
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G012501_T02 (Zea mays), 5'ss of exon 7
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagt--acaagtcattctatag-gtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
|||| |||||||||||| || || ||||| ||||| || |||||||||||||| ||| | || |||||| |||| ||||| |||||||| | || ||| || |||| | | | | |||||| || || | ||| ||| | | |||| || | | |
TTACCCTTTTCATGTCTGACATAGCAGATGAATTCAAGATAGTTGTTGTTGAAGCTATACGGTCTTTGTGCCTGAAGTTCCCACTAAAATATCGCTCAATgtatgtgaacaactgaaagagtgttgattctttgccttca-attctactgctttgact---atgtcttctgtctttcag----------------------------------------
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 8
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagta------caagtcattctataggtttctttccccccagaagttacatatttcatttgaatgttt---ttcctagatgaatggtctaaattactggtttcttttctgt-tatta--ttttcag------
| || ||||| ||||| |||||||||||||||||||||||||| || || || ||||||||||| ||||| |||||||||| | ||||| ||||| ||| |||| | | | ||| || ||| | | || | ||||| |||||||| || | | | || | | | ||| || | | | ||| | ||||||
TAACTAATTTTATGTCAGATATTGCTGATGAGTTCAAAATTGTGGTCGTGGACGCAATAAGATCGTTGTGTGTGAAATTCCCACTGAAATACAGATCCTTgtaagtaaagttttagggtttgttatttgtagttttggtctcgagcatttc-tatttt-tttgaatgattaaatatgttatggtatctttttagcatttggcttatgattgatctatcaccttttcatttgtag
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 9
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag------------------
|||||||||||||||| |||||||||||||| |||||||||||||| || ||||| || ||||||||||||||||| || ||||| || |||||| | ||| ||| | || | | | | | || | | | || | ||| |||| |||| ||| || ||||| || |||| | | || | | || || |
TTACAAATTTCATGTCAGATATTGCTGATGAATTCAAAATTGTTGTAGTGGAAGCCATCAGATCATTGTGCTTGAAGTTTCCTTTGAAGTATAGAGCCTTgtaagtg-atatcctgtttttgatgtcat---cattaaaacatttgggttttatttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcag
upper sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 9
lower sequence: PP1S276_96V6.1 (Physcomitrella patens), 5'ss of exon 9
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
| || || |||||||| |||||||||||||||||||||||||| || || ||||| || | || | || | || |||||| ||| ||| | | ||||||| | | |||| | | || | || ||| | ||| | | | |||| ||| ||| || || ||| |||
TCACGAACTTCATGTCCGATATTGCTGATGAGTTCAAAATTGTGGTGGTGGAAGCCATCCGCTCTCTTTGTCTCAAGTTCCCTCAAAAGTATCGCGCATTgtgagtttc-gcaaaaatataaacctataaacctattgtgaatatataaacctattgtgaatatattgtaga---atgttct---ttgtgatatttccttcggttcc---------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|193488081|gb|FK453174.1|FK453174EST: GAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCT GATGTATTTCCTAAGTAACATTCTTAGGGAAGAAGGTGGCTTTGATTACAA
genomic: GAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaa ... ttattttcagGATGAATTTCCTAAGTAACATTCTTAGGGAAGAAGGTGGCTTTGATTACAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTACAAATTTCATGTCTGATATTGCTGATGAGTTCAAAATTGTTGTTGTTGAAGCAATAAGATCATTGTGCTTGAAATTCCCTTTAAAATATAGATCTCTgtgagtacaagtcattctataggtttctttccccccagaagttacatatttcatttgaatgtttttcctagatgaatggtctaaattactggtttcttttctgttattattttcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA