Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaaatttctttataatttataaacaagggttatacacttctatttatttattattttttaaattctggaatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
Basic information
species | Glycine max |
transcript | GLYMA17G02640.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 20
lower sequence: AT5G18620.2 (Arabidopsis thaliana), 3'ss of exon 20
gtgagcaaatttctttataatttataaacaagggttatacacttctatttatttattattttttaaattctggaatttggtaaacat-agGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
| ||| || || | ||| ||||| ||| || | ||| | || |||| ||| || | | ||| || | |||| || ||| |||||||| | | || || ||||| ||||||||||| ||||| ||||||||||| || || ||||| ||||||| |||||||||||||
gcaagccaaaccattcg-accttac---tgtgggttg-acatttgtttttgatggtttttttataatttaatggagttgatattttttagGGTTTCTCAACATGGAGCAGAAGAGACTTCAATGCCTTCATTAGGGCTTGTGAGAAGTATGGCCGGAACGACATAAAGAGTATTGCCTCTGAGATGGAAG
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 3'ss of exon 20
gtgagcaaatttctttataatttataaacaagggttatacacttctatttatttattattttttaaattctggaatttggtaaacat-agGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
| || ||| | ||| || | | | ||| ||| || |||| | || |||| || | | | ||| || | |||| || ||| |||||||| | | ||||||||| ||||| | ||||| ||||| ||||||||||| || || |||||| | ||||| |||||||||||||
gcaagtgaatatgtttgatgtt---agagtggtcttagacatttg-atttggtaggctttaattaattttttgtaattgtcaatctccagGGTTTCTCAACATGGAGCAGAAGAGATTTTAATACTTTCCTCAGGGCTTGTGAGAAGTATGGCCGCAACGACATAAAAAGCATTGCCTCTGAGATGGAAG
upper sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 20
gtgagcaaatttctttataatttataaacaagggttatacacttctatttatttattattttttaaattctggaatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
||||| | | || | || ||| | || ||| ||| || | ||| | || ||| || |||||||||||||||||||| | | ||||| ||| ||||||||||||| ||||| ||||||||||| |||||| ||||| ||||||||||||| |||||||
gtgagtagacc-----atctactgtagggtaggatc---tgttttggtttcttttctaatctttgacttttggtg------aattgtagGGATTTTCATCATGGAGTAGAAGAGATTTCAATACTTTCATTAGGGCTTGTGAGAAGTATGGCCGGAATGATGTAAAAAGTATTGCTTCTGAAATGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatacacttctatttatttattattttttaaattctggaatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
tatttatttattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaaatttctttataatttataaacaagggttatacacttctatttatttattattttttaaattctggaatttggtaaacatagGGATTTTCATCATGGAGCCGGAAGGATTTTAATGCTTTCATTAGGGCCTGTGAAAAGTATGGCCGAAATGATATAAAAGGTATTGCTTCTGAGATGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG