Sequence
atgc intronic sequence ATGC exonic sequenceAGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
Basic information
species | Glycine max |
transcript | GLYMA07G26540.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g50320.2 (Oryza sativa), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||||||||||| |||||||| ||||||||||| ||||||||||||||||| ||||| |||||||||||||||||||||||||| || | || ||||||||| | | | ||| | || || | || || ||||| | | || | | | | | || | | || | ||| || | | | || || | ||||
AGCAAACAGAGTTGCTGTTGTAGTTGCAAATGAGTGGAAAGATGCTAATGACAAAGTAATGCCTGTCAAACAGTGGCTTGAAGAGCGCAGGTTTCTGCAGgtaaagatgatatacttctgtttgttttttgaagctcatcta-cggttg--tccatg----caaagtcacacttcacat-catatattcaatttttatggcatgacaaatgtttcttcag--------------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g14080.1 (Oryza sativa), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
||||||||| || |||||||||||||| || || ||||||||| ||||||| ||||| ||||| || ||||||||||||||||| || ||||| ||||||| || | | | ||| | || | || | | | | | | || ||||| |||||| ||| | ||| || ||| | | || | || | || | ||||| ||| | | ||
AGCAAACAGGGTTGCTGTTGTGGTTGCCAACGAGTGGAAAGATTCTAATGACAAAGTCATGCCAGTTAAACAGTGGCTTGAAGAGCGCAGATTCCTGCAGgttggatgatctcacattatgtcttctctttgttggagtacatgcactt--ctatgaattttattgactaagtttgctggc--ccctttctgaatactatttttcga-atggcattctgcaataacttttcttttaaaa-atattttgacag
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaa-------tatttttttgctttactct---gccaattcat-ctgaattta-gtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgct----ttccgcttattattaaattgcattcttatag-----------
||||| ||||| || || ||||| ||||||||||||||||||| ||||||||||| |||||||| ||||| ||| | |||||||| | | || || |||| ||| ||| | | || || | | | ||| || | || || || | | | | | | |||| ||| | || | | | | | | | || | | | || || || || | || | |
GGCAAATAGAGTTGCAGTAGTGGTGGCAAATGAATGGAAAGATGGCAATGATAAAGTAATGCCTGTTAAACAATGGTTAGAAGAACGGAGGATTTTACAAgtaagtaatgctatcatttaattatgtgctattgctgacttgttctggatggatacagtgaagccttttaatgcaacaattgttttcacttttccccactcctaaacgg-agtatactatggttcatctttttggggtctaatttgttgggaattttcttttctttctttcttttgcag
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM5G832989_T01 (Zea mays), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactct--ttttgcttatattt-cttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
||||| || || ||||||||||| ||||| || ||||||||||||||||| ||||| |||||||| ||||||||||| ||||| || | ||| |||||||| || | ||| | | | |||| | ||| || |||| | | | | | ||| | ||| | | || ||| | ||
TGCAAATAGGGTTGCTGTTGTGGTCGCAAACGAGTGGAAAGATGCTAATGACAAAGTAATGCCTGTTAAACAGTGGCTGGAAGAGCGAAGGTTCCTGCAGgtaggatgctaaagctgtttcatat-agggcatccacagttatcagtagagtg-taaaatgcattagttctaatgttgtcgacaaaaactgcttctgtag-------------------------------------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G008556_T01 (Zea mays), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgc-----tttactctgccaattcatctgaatttagtggttgagttcttgacttccatg-actctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||||||||||| ||| ||| ||||| ||||| ||||||||| ||||||| || |||||||| || ||||||||||||||||| ||| | ||||| ||||| || || | ||| || | ||||| | | ||| || | ||| || ||| | | |||| | | | | | | | | | | | | | | | | || | || || ||
AGCAAACAGAGTTGCTTCTGTTGTTGCTAATGAGTGGAAAGATTCTAATGACAAGGTGATGCCAGTTAAACAGTGGCTTGAAGAGCGTAGGTTCTTCCAGgttggatggttaaactagcattttctttaccaatgtacttttttttgt--attcaactctgcacaaatatgcatattctttggtgaaacaaaatgtaccacctgctggacatggttcttttcttgagtatcatatgtgatactttcttgtttctacag
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G039325_T01 (Zea mays), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtgg--ttgagttcttgacttccatg-actctttttgctt-------atatttcttcttttatattaatttcccacatttggcttcgct---ttccgcttattattaaattgcattcttatag
||||||||| || ||| ||| || || ||||| ||||||||| ||||||| || |||||||| || ||||||||||||||||| ||| | ||||||||||| || || || || | | | | || | || || | | | ||| | ||| | | |||| | || | | || || | | ||| | ||| | | | | || | || | | || ||| ||
AGCAAACAGGGTTGCTTCTGTTGTGGCCAATGAGTGGAAAGATTCTAATGACAAGGTGATGCCAGTTAAACAGTGGCTTGAAGAGCGTAGGTTCTTGCAGgtctgatggttaaactggcctttttctttaccaatgtactttgtagcatccacctctgcaaaaatatgcatattctttggtgaaacaaaatgtaccagctgttggtccgttgttggacacgtttctttgttgaatatcatttgtgataatttcttgtttttacag
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: AT2G01750.1 (Arabidopsis thaliana), 5'ss of exon 8
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttg-cttatatttcttc-ttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||| ||| || || ||| || |||||||| |||||||||| || ||||||||||||||||| || || ||||| |||||||| |||| ||||||| | |||| | |||| | | ||| | | |||| | | | | || || | || | ||| | | | || | || |||| || ||| || |
TGCAAGCAGGGTTGCAACTGTAGTGGCAAATGAGTGGAAAGATGGTAGCGATAAAGTGATGCCTGTGAAGCAATGGCTCGAAGAACGAAGATTTCTGCAGgttac-ttttgatattttatttttgggcttctgttactgcttcgagttgtgattcatattcacaggaaccattgtaacttgagtaagtgcattctttaaccattttcc-tgtttctttttggacag----------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G14840.2 (Arabidopsis thaliana), 5'ss of exon 7
---------------------------------------------AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaat-atttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttat-attaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
||||||||||| ||| ||| || || || |||||||||||| ||||||| |||||||||||||| | |||||||||||||||||| |||| |||||||| || | | ||| | | ||||| || | ||| | | | | | | | |||||| | | | | ||| || |||
AGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACAAAgtgatgcctgtaaggcagtggcttgaagaacgtagatttttgcaggtcattgctgatacatattaatatttaaattctcttgctgcttcaaattgtgattcatattcacggagat----taacttatactattgccaccaccgttatgtttggacag------------------------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G68060.1 (Arabidopsis thaliana), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttctt--gacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||||||||||| || ||||||||||||||||||||||||| ||||||||||||||||||||| || || |||||||||||| | | || | ||||| || |||| | | | || ||| | | | | ||||| | | || |||| ||| || || | | ||| ||
AGCAAACAGAGTTGCGACAGTGGTTGCAAATGAATGGAAAGATGGTAATGATAAAGTGATGCCTGTGAAGCAATGGCTTGAAGAAAGAAGGTTTCTACAGgt----ttactttgatatgattgcccttttcctaaatttgtggaatccagattctttgaagtgacaaaggcacacaaccttacattctcactctttaactctcttcttgcag------------------------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G14840.1 (Arabidopsis thaliana), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaat-atttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttat-attaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
||||||||||| ||| ||| || || || |||||||||||| ||||||| |||||||||||||| | |||||||||||||||||| |||| |||||||| || | | ||| | | ||||| || | ||| | | | | | | | |||||| | | | | ||| || |||
TGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACAAAGTGATGCCTGTAAGGCAGTGGCTTGAAGAACGTAGATTTTTGCAGgtcattgctgatacatattaatatttaaattctcttgctgcttcaaattgtgattcatattcacggagat----taacttatactattgccaccaccgttatgtttggacag------------------------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G24764.1 (Arabidopsis thaliana), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||||||||||| || |||||| |||||||| |||||||||| ||||||||||||||||||||| || || ||||| |||||||| | || | ||||| || |||| | | | || || | |||| | || || | | | | | ||| | |||| | || || | || ||| | |
AGCAAACAGAGTTGCCACTGTGGTAGCAAATGAGTGGAAAGATGGTAATGATAAAGTGATGCCTGTGAAGCAATGGCTCGAAGAACGAAGGTTTCTACAGgt----ttactttgatatgatggcccctctcctagattcttaggacgcaaattatttgcagtgagcaaggcccatccatatctacattctcacttcttgatcctcaactttt--ttgcag--------------------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||||||| || || || || || |||||||||||||||||||||||||| || |||||||| || ||||| ||||| || ||||| ||||||||||| |||| ||||||| | ||| | | || | ||||| | || | | | | |||| ||| || | | | || | | || | | ||| || ||| ||| || ||| ||
TGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACAAGGTGATGCCCGTAAAACAATGGCTAGAGGAACGGCGATTCTTGCAAgtaaa------------tactctga-agttcttattgtttcaaaacttgagctattatttactgt---ttctttttctttgatcatgac---tgtgtttggcttttgtagttt-ccacagtttgtaattgttaccaaaacctcttgttacag
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S31_77V6.1 (Physcomitrella patens), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaat-ttagtggttgagttcttgacttccatg-actctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
||| |||||||| || ||||| ||||||||||| ||||| ||||| ||||| || || ||||||||||| |||||||| || || | | || ||||||| | ||| ||| | | | | |||||| ||| | || | | | | || |||| | | |||||| | | || | | || | || || | || || |||
AGCTAACAGAGTTGCAGTTGTTGTTGCAAATGAGTGGAAGGATGCAAATGACAAGGTTATGCCTGTCAAGCAGTGGCTCGATGAGAGGAGGTTTATGCAGgt----tcgtttgattttgcagt-ctgtacctcctgaatgttatcgattatgaggtaagcagtaaaatacaactttttttcttttttcttttctgattgtgagttttctgatca---ttgtcgttacgattacag-------------------
upper sequence: GLYMA07G26540.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ18059 (Selaginella moellendorffii), 5'ss of exon 7
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgta-atatttttttgctttactctgccaattcatctgaatttag--tggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
|||||||||||| || || || |||||||| |||||||| ||||| || || || || ||||| || ||||| ||||||||||| | ||||| ||||||| | | | | | | | | ||| | | | ||| | || | |
AGCAAACAGAGTGGCAGTCGTCGTTGCAAACGAATGGAAGGATGCAAACGACAAGGTCATGCCCGTGAAACAATGGCTTGAAGAGAGGAGATTCATGCAGgtgcgtgcgtacgttgtgtgtgcgtgtgtgtttcttccattcggcctaactaagtgcgtgtccttgtcag-------------------------------------------------------------------------------------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|193665776|gb|FK609663.1|FK609663EST: ATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAG GGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCA
genomic: ATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttt ... attcttatagGGAGAAATGCAGCAACTTCGTGACAAGCTTGCTATAGTTGAGCGCGCTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCAAACAGAGTAGCTGTTGTGGTTGCAAATGAATGGAAAGATGCTAATGATAAAGTGATGCCTGTCAAACAGTGGCTTGAAGAACGTCGATTCTTGCAGgtaatatttttttgctttactctgccaattcatctgaatttagtggttgagttcttgacttccatgactctttttgcttatatttcttcttttatattaatttcccacatttggcttcgctttccgcttattattaaattgcattcttatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC