Sequence
atgc intronic sequence ATGC exonic sequenceATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaagactggattttctttgtttgatttattaatatgtaaatatacttttctccagactttttatacgagcttttatgcag
Basic information
species | Glycine max |
transcript | GLYMA09G18450.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g49820.1 (Oryza sativa), 5'ss of exon 6
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaag--actggattttctttg----tttgatttattaatatgtaaatatacttttctccagactttttatacgagcttttatgcag-----------------------------
||| || | | || || || | ||||| || ||||||| ||||| || ||||| ||||||||||||||||||||||| || || || || || | ||| ||| | | | || ||||| || | | || | ||||| | | | || | | | | || | | ||
ATTATTATTCTCCCTCTGCTCCTTGCAGCCTTGGTTGCTGTTTCTCGGGTAGATGACTATTGGCATCATTGGCAAGATGTGTTCACCGGTGGAATTTTGGgtaggttaattttatagtgttacctttgcagattatacctcgcaacaagtaaaggaggtactgacaag-tgtgctgcatgtaattcttggaaggttctaactttactgttaaaactttgcag
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 6
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaag-actggattttctttgtttgatttattaata-tgtaaatatacttttctccaga-ctttttatacgagcttttatgcag
| || || | || || ||||| ||| | | | || |||||||| ||||| ||||| |||||||| ||||||||||| ||| | || || |||||||||||| | | | | | || | ||| | | | || ||| | | | | | | || | |||| |||
CTAGTCTTTCTGCCTCTACTTGTTGCATCACTTGTGGCAGTCTCTCGGGTTGACGATTACTGGCATCACTGGCAAGATGTATTTGCAGGCGGCATTATAGgtctgtagtttcaacgcttctgtaccactttaaacattcttgctctcaagataagtacatgtaattcatctcattctctaccttattcag
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 5'ss of exon 7
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgt-----tgaagactggattttctttgtttgat---------ttattaatatgtaaatatacttttctccagactttttatacgagcttttatgcag
|| || || | || || ||||| || | | | || |||||||| ||||||||||| |||||||| |||||||| || ||| | || || |||||||| ||| ||||| || | | ||| || | | | ||| || | || | | | || | | |||| |
ATAGTATTTCTGCCTCTACTTGTTGCGTCCCTTGTGGCAGTCTCTCGAGTTGATGATTACTGGCATCACTGGCAAGACGTATTTGCAGGTGGCATTATAGgtttgttattttgaagcctttctctcaaccatttagaacactctcgttgtcagaaagtaggcatggatctcgtctcattcttctttcccctttttcag---
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G447433_T08 (Zea mays), 5'ss of exon 8
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaagactg--gattttctttgtttgatttattaa------tatgtaaatatacttttctccagactttttatacg--agcttttatgcag
| ||||| | || || ||||| || | | | ||||| ||||| ||||||||||| |||||||| ||||||||||| ||| | || || | |||||| || | || | | || | | ||| | | | | || | | | || | | | || | || | | |||
TTAGTTTTTCTGCCTCTACTTGTCGCGTCACTTGTGGCTGTTTCTCGAGTTGATGATTACTGGCATCACTGGCAAGATGTCTTTGCCGGCGGCATCATAGgtttgctagtatttgatgctcttttgtatttagcatttcgaacacccttcacaatcaaaagtcaatcatggagtgtcattctcttatttcttttcag
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G077187_T01 (Zea mays), 5'ss of exon 6
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgt--ctgttgaagactggattttct-ttgtttgatttattaatatgtaaatatacttttctccagactttttatacgag-cttttatgcag------------------------------------------------------------------
||||| | | || || ||| | ||||| | | || || ||||| |||||||| |||||||||||||||||||| || | |||||| || | | ||| | ||||| | | || | ||| | | | | || | | | | | | || ||| | ||| ||| |
ATTGTCCTTTCCCCTCTGCTTCTTGCAGCCTTAGTGGCAGTTTCTCGAGTTGATGACTATTGGCATCATTGGCAAGACGTATGTACTGGCGGATTACTTGgtaggtcttgaataacacaccccctctcgttccctccacagacac-tacaaagaaatggaaacgttatgttcatatggttcttctattctatgaaatgtatgtacatagtacatacgattctcaaaagttgaaggtatttttttttacaacgtgcag
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G024615_T05 (Zea mays), 5'ss of exon 7
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaa--gactggattttctttgt--------ttgatttattaatatgt---aaatatactt--ttctccagactttttatacgagct-----tttatgcag
||||| || | || |||||| || || | | ||||| ||||| || ||||| || |||||||||||||||||||| ||| | || || ||||||||| ||| || | || || | | ||||| | | |||| |||| || | || || | || || || || |||||
ATTGTGTTTCTGCCTCTTCTTACTGCTGCGCTTGTGGCTGTTTCTCGAGTGGATGACTACTGGCATCATTGGCAAGATGTATTTGCAGGGGGTCTTATAGgtttgtaaaatttgataaatattttctaaagaggacgcagatttttctagatgttctgaatacacataattgatcatatttcttgccatggccacttgcttttgcag
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: AT1G15080.1 (Arabidopsis thaliana), 5'ss of exon 6
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaagactggattttctttgtttgatttattaatatgtaaatatacttttctccagactttttatacg-----agcttttatgcag-------
||||| | || || || || || ||||| || ||| ||| || | |||||||| ||||||||||| ||||||||||||||| |||| | |||||| |||| || ||| || ||| | | || ||| || || | | || | | | | |||| ||||
ATTGTGATTTTACCTCTACTGGTTGCAGCATTGGTTGGTGTATCCAGAGTTGATGACTATTGGCATCACTGGCAAGATGTTTTTGGAGGAGCTATCATAGgtttgtt------tgtttttgtcttttttaactcatgaattcaaaattacgtgagaaacaaagctgatgacagacacacatctttcttgcaatgtccag
upper sequence: GLYMA09G18450.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 5
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgtt-----------gaagactggattt----tctttgtttgatttattaatatgtaa---atatacttttctcca---gactttttatacgagcttttatgcag
||||||||| | || | ||| | |||||| | | | || ||||| || ||||| ||||||||||| ||||||||||| ||| | ||||| | ||||||||||| || || | | ||||| || | || | | | | | ||| ||| ||||| | | ||| | | || | ||||
ATTGTTTTCCTGCCCATACTTCTTGCAGCTCTAGTGGGAGTTTCTCGAGTAGATGACTATTGGCATCACTGGCAAGATGTATTTGCCGGAGGTGTAATAGgtctgttttatcagtaccgatgattatgaatggaatctttccttactctacttttttctgatttatacactcttctcagtataattctttgtccttcctctctggcagMapped 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|208143191|gb|GD941943.1|GD941943EST: TGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAG GTTTGACAATCTCTTCCTTTTGTTACTTACAATTCTTTCCACCTCCATATG
genomic: TGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaa ... ttttatgcagGTTTGACAATCTCTTCCTTTTGTTACTTACAATTCTTTCCACCTCCATATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGTTTTCTTTCCGCTTCTTGTGGCAGCTATGATTGCTGTCTCTCGTGTTGATGATTATTGGCATCATTGGCAAGATGTTTTTACTGGAGGGCTTATAGgtctgttgaagactggattttctttgtttgatttattaatatgtaaatatacttttctccagactttttatacgagcttttatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG