Sequence
atgc intronic sequence ATGC exonic sequenceTCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag
Basic information
species | Glycine max |
transcript | GLYMA10G35490.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 10
TCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag
| |||||||||||||||||||| ||||||||||| || || ||||| || |||||||| || || | || || || |||||||||||||| |||||||| | ||| | || ||| | | ||| | || ||| | || | | || | | | || ||
TTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATTTGATACTGATGTTGACAGgtataaaatatatagc----------cattgaaatta-tacaggttcgtaatgcac-aaccctaaaattgtgccgtttgcag
upper sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G069676_T02 (Zea mays), 5'ss of exon 9
TCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag
| || || |||||||||||||| |||||||| ||| || |||||||| ||||||||||| || || | || || || |||||||||||||| |||||||| | ||| ||| || |||||| || || | | ||| | || | | | || ||
TTCCCAACCCTGAGGACAAAACCGCAATGAAGTTTATTACACAAGCAGTTCTTGATAACAAGGCAGACTTAGGCATCATATTTGATACTGATGTTGACAGgta-----catatagcta------ctctttgaggtt-ctgctcatgtctaataggtcgtagtctaaaccatacagtttgcag
upper sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 9
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 5'ss of exon 10
TCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag
|||| ||||| || || || | |||||| ||||||||||| | || || |||||||| || |||||| | || || ||||||||||||||||| || ||||| | | ||| || | | ||| ||| || | || ||| ||| | ||| | ||| | | ||
TCCCTAATCCGGAAGATAAGGCGGCAATGGAAGCTATAACCAAGGCTGTTCTTGATAATAAGGCTGATTTGGGTATCATCTTTGATACTGATGTTGATAGgtagtaac--tgcagcta-tctctgttacttaggagaat----ttattagattgcct--cttacaaagatttttgt--gaag
upper sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 5'ss of exon 10
TCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaa-ggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag
| || || || ||||| || |||||||||||| || ||||| || ||||| | ||| | |||||||| ||||||||||||||||| ||||| ||||||| | || | || | | | ||| | | || ||| ||| | | | | ||||| | ||||
TTCCTAACCCGGAGGATAAGGAAGCAATGAAAGCCATCACCCAGGCTGTCCTAGCAAACCAGGCTGATCTGGGAATTATCTTTGATACAGATGTTGACAGgtgatggctatttccattcacgtgttcatttaacatgcatacagtt--tgattgttacaagcaagtgttttgttcag------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|193490892|gb|FK455107.1|FK455107EST: CTTGATAACAAAGTTGATCTTGGAATTATTTTTGATACTGATGTGGACAG ATCTGCTGCTGTGGATTTCACTGGCCGTGAATTCAACAGGAATCGTTTAAT
genomic: CTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatct ... tcatctgtagATCTGCTGCTGTGGATTTCACTGGCCGTGAATTCAACAGGAATCGTTTAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTTTGATACTGATGTGGACAGgtaaggatcttattactaatcagtttcactgaggtgactactgtttttaaatttattaagcatcaatcactttcatctgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT