Sequence
atgc intronic sequence ATGC exonic sequenceTGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcag
Basic information
species | Glycine max |
transcript | GLYMA07G00350.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 5'ss of exon 8
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagac--ttgtattgatgctcatctaatatgatgttttctcttttgtttcag
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TGTGCCGCACGAGGGGCTGACCTTTTTGAGAGCATAGCAGCTGAAATTATCAGTGCAATGATACTCGGGGGAACAATGGCACAACGCTGCAAAATTGAAGgcaagtctcttttgcttgtcatgcaacatcattgataagaatgcgaaattgtccagtgacaattcctgtgagctcctaaggctgtgttctttgctcagtg----
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G075900_T01 (Zea mays), 5'ss of exon 8
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcag
|||||||| ||||| |||||||||||||| || || ||||| ||||| |||||||| ||||||||||| |||||||||||||| ||||||||||||| ||||||| || ||| | | | | || | | ||| | ||| | | || | | || | | | || | || |
TGTGCTGCCCGAGGCGCTGATCTTTTTGAGAGCATAGCAGCAGAAATTATCAGTGCAATGATACTTGGAGGAACAATGGCACAGCGCTGTAAAATTGAGGgcaagtctcttttgcttaccctctaatatttgtcagtaagaatactggcca-cagcttgcaagtggtttctaatattcttggtatcataagttcttattaa-
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 5'ss of exon 9
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgc-----aagtaactgagttacaccattttgtgcctttct-tgcttacttttggttatcagact-----------tgtattgatgctcatctaatatgatgttttct-------cttttgtttcag------------------------------------------------
|| |||||||||||||||||| | ||||||||||| || || ||||| |||||||| ||||||||||| || |||||||| || || ||||||| ||| | | | || || | | | | | || | || |||| | || | | | | || || | | ||| | | | || | | ||| ||| |
TGCGCTGCTCGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTTGGGGGTACAATGGCTCAGAAGTGCAAAATTGAAGgtttgcgaggcatcttgattttattttaaagagttgtactgttggtatttttagcaataaaattgcaaggctagttatactgtggtcaaactagcagaaagggttttagagttacctttctttttgcttcatgatttttttatttcttactcaactttttcgtgtatcatgcag
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatg-ctcatctaatatgatgttttctcttttgtttcag
||||||||| ||||||||||| | ||||||||||| || || ||||| |||||||| |||||||| |||||||||||||| | || ||||||| ||| | | | || | | ||| | | | | | | || || || ||||| | | || | || |
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataact-tatggtgtgagttcctgactcataccg-agaaaattaaatgaactgctagg-
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 8
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcc--tttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcag
||||||||| ||||||||||||| ||||||||||||||||||||||| |||||||| |||||||| |||||||||||||| ||||| || || |||| ||||||||| || || ||| | | ||||||| | |||| || |||| | |||| | | ||| |
TGTGCTGCTAGAGGTGCTGATCTGTTTGAAAGTATTGCAGCTGAAATCATCAGTGCTATGATACTGGGTGGAACAATGGCTCAACGTTGCAAGATTGAAGgcaagtaccttggtcttgatgtttaaaggaagtgccttgcttgatagaggtt-tcttttgtgtaacatagttcatgttcaagaatggagagagatagagag---
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S105_42V6.2 (Physcomitrella patens), 5'ss of exon 8
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctt---tcttgcttacttttggttatcagacttgtattgatgct--catctaatatgatgttttctcttttgtttcag------------------
|||||||| || ||||| ||| | ||||||||||||||||||||||| |||||||||||||| |||||||| || ||||| | ||||| ||| | | || |||| | || || |||| | || || | || || | || ||| | ||||| | | | | | |||||
TGTGCTGCCCGTGGTGCGGATTTATTTGAAAGTATTGCAGCTGAAATTATCAGTGCCATGATTCTTGGTGGCACCATGGCCAAGCGCTGCAAACTAGACGgtaagtttccttattgtgt--ttgtgtgtttgaagtccgatatagtgttctttgttctgctgcgcaggatcttgtcatcttacaatccatacaccactaattttcactgactcgcttttttgcag
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S28_200V6.1 (Physcomitrella patens), 5'ss of exon 8
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcct-ttcttgcttacttttggttatc-agacttgta----ttgatgctcatctaatatg-atgttttctcttttgtttcag
|||||||| || ||||| ||| | ||||||||||||||||||||||| |||||||||||||| |||||||| |||||||| ||||||| ||| | | ||| ||| || ||| || | | || || | | | | ||| ||| |||| | |||| || ||||||| || | | | || || |||
TGTGCTGCCCGTGGTGCCGATTTATTTGAAAGTATTGCAGCTGAAATCATCAGTGCCATGATTCTTGGTGGTACAATGGCCAAACGCTGCAAACTAGAAGgtcagtttcttcattat-ttatgtcacatcaatttttttctgcctcgtatgatcgagatatgtagaggtccatgcacaactaatattcatttgattgatatttttgcag
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: EFJ13082 (Selaginella moellendorffii), 5'ss of exon 7
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcag
||||||||||| ||||||||| | || ||||||||||| || || ||||| || |||||||| || || || || |||| || | || || | | ||| || | || || |||| | | ||| ||||||| | |||
TGTGCTGCTCGTGGTGCTGATTTATTCGAAAGTATTGCTGCGGAGATAATTAGCGCCATGATTCTGGGAGGCACTATGGTCAAAAGATGCAAGCTAGAAGgtttgtgtgttag-------atgttgt-catcgaagttttaagtttggttcgctgacgcag-----------------------------------------
upper sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
lower sequence: EFJ14101 (Selaginella moellendorffii), 5'ss of exon 7
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcag
||||||||||| ||||||||| | || ||||||||||| || || ||||| || |||||||| || || || || |||| || | || || || | | || || |||| | || | | | ||| ||||||| |||
TGTGCTGCTCGTGGTGCTGATTTATTCGAAAGTATTGCTGCGGAGATAATTAGCGCCATGATTCTGGGAGGCACTATGGTCAAAAGATGCAA----GCTAGAAGgtttgtgtgttaga--------tgttgtcatcgtttaagtttggttcgttgacgcag-----------------------------------------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|18692782|gb|BM521630.1|BM521630EST: CAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAG ATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGA
genomic: CAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaact ... tttgtttcagATCCATCTGGCTTCATCTTGTTTCCTCTTGTTGTTCACTCATTCGATCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatgctcatctaatatgatgttttctcttttgtttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA