Sequence
atgc intronic sequence ATGC exonic sequence...tatccaataaattacttgtctgtagtttggattattggtagacttgtgagttttgttagctctgaagtaatttgttttgctttcctgccataatttgtagATTGCTGTGATGGAACTGATGAATATGATGGTCAAGTAAAGTGTCCAAATACCTGCTGGGAGGCTGGTAAAGTTGCTCGAGATAGACTGGAAAAAAAGAT
Basic information
species | Glycine max |
transcript | GLYMA07G35090.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G35090.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G56360.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------tatccaataaattacttg------tctgtagtttggattat-tggtagacttgtgagttttgttagctctgaagtaatttgtttt----gctttcctgccataatttgtagATTGCTGTGATGGAACTGATGAATATGATGGTCAAGTAAAGTGTCCAAATACCTGCTGGGAGGCTGGTAAAGTTGCTCGAGATAGACTGGAAAAAAAGAT
| | || || ||| | ||| ||| | | ||| ||| |||| | | | | | | | ||| || | |||| | || | |||||| |||||||||| |||||| ||||||||||| ||| || | |||||| |||||||| ||||| |||| ||||||||| | ||| | || || ||
gtatgttactcaaattctgtagttatttacattttaaattttgttgaacctcttctttgcaagcatttgtgttttcaaatgcatggcagaggaagaagttgt-tgaagtgttagcttattcgtacttatggcttgtttacctatgggagcagATTGTTGTGATGGAAGTGATGAGTATGATGGTCACGTATCATGCCAAAATACATGCTGGGAAGCTGGAAAAGCTGCTCGAGAAAATCTGAAGAAGAAAAT
upper sequence: GLYMA07G35090.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g00140.t01 (Vitis vinifera), 3'ss of exon 3
tatccaataaattacttgtctgtagtttggattattggtagacttgtgagttttgttagctctgaagtaa-tttgttttgcttt---cctgc-cataatttgtagATTGCTGTGATGGAACTGATGAATATGATGGTCAAGTAAAGTGTCCAAATACCTGCTGGGAGGCTGGTAAAGTTGCTCGAGATAGACTGGAAAAAAAGAT
| || || |||| | ||| | ||| | || | ||| ||| | | | | | ||| ||| |||| ||||| || ||| ||||||||| ||||| | |||||| ||||||||| ||||||| |||||||| || || ||||||||||| ||||| || |||||| | | ||||||||
tgattgatgaag-gcttgatagcctcttg--tcatttcttcaccatca--tattggtagttgtatatttactttatttcccttttcacctgctcacaatgaccagATTGCTGCGATGGGAGTGATGAGTATGATGGTAAAGTAAAATGTCCAAACACATGTTGGGAGGCTGGAAAAGTGGCCAGAGATAAGTTAAAGAAAAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgagttttgttagctctgaagtaatttgttttgctttcctgccataatttgtagATTGCTGTGATGGAACTGATGAATATGATGGTCAAGTAAAGTGTCCAAATACCTGCTGGGAGGCTGGTAAAGTTGCTCGAGATAGACTGGAAAAAAAGAT
aagtaatttgtttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatccaataaattacttgtctgtagtttggattattggtagacttgtgagttttgttagctctgaagtaatttgttttgctttcctgccataatttgtagATTGCTGTGATGGAACTGATGAATATGATGGTCAAGTAAAGTGTCCAAATACCTGCTGGGAGGCTGGTAAAGTTGCTCGAGATAGACTGGAAAAAAAGAT
- -ccaataaa
- - - - - - - -ttgtctg
- - - - - - - - - - - - - - - - - - - - -acttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa