Sequence
atgc intronic sequence ATGC exonic sequence...atttcaggttcctgttataaattttgtctatatttttttaatagaattttttttatataatagattaaataatggatggtacttattcattgttaagcagATCTCGTCGTTCAGAGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACGGCCACAAAGACTCTCCATCTGAGAACTGATTCGAGGAAGGACCGTG
Basic information
species | Glycine max |
transcript | GLYMA17G14820.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 1
------------------atttcaggttcct----gttataaattttgtctatatttttttaatagaattttt---tttatataatagattaaataatgga--tggtacttat-tcattgtta-agcagATCTCGTCGTTCAGAGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACGGCCACAAAGACTCTCCATCTGAGAACTGATTCGAGGAAGGACCGTG
||| | | | | || | || ||| | | | |||| | | ||| | || | |||||| || | || | ||| ||| | ||||| ||||| | || || |||||||| |||||||| || |||||| ||||||||||||||| || |||||||| || ||| |||| |||||||| | | || | |
gtaagttttctttttctagtttgatgatatttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagcagGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATAGAG
upper sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.2 (Arabidopsis thaliana), 3'ss of exon 1
------------------atttcaggttcct----gttataaattttgtctatatttttttaatagaattttt---tttatataatagattaaataatgga--tggtacttat-tcattgtta-agcagATCTCGTCGTTCAGAGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACGGCCACAAAGACTCTCCATCTGAGAACTGATTCGAGGAAGGACCGTG
||| | | | | || | || ||| | | | |||| | | ||| | || | |||||| || | || | ||| ||| | ||||| ||||| | || || |||||||| |||||||| || |||||| ||||||||||||||| || |||||||| || ||| |||| |||||||| | | ||
gtaagttttctttttctagtttgatgatatttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagCAGGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATA---
upper sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.1 (Arabidopsis thaliana), 3'ss of exon 1
atttcaggttcctgttataaattttgtctatatttttttaatagaattttttttatataatagattaaataatgga--tggtacttat-tcattgtta-agcagATCTCGTCGTTCAGAGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACGGCCACAAAGACTCTCCATCTGAGAACTGATTCGAGGAAGGACCGTG
||| ||| | | | ||||| | | | || || ||| || | | | |||||| || | || | ||| ||| | ||||| ||||| | || || |||||||| |||||||| || |||||| ||||||||||||||| || |||||||| || ||| |||| |||||||| | | || | |
-tttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgtttt---gattaagtacttgagcttgtaactatgtttttgtttcagcagGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttttttatataatagattaaataatggatggtacttattcattgttaagcagATCTCGTCGTTCAGAGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACGGCCACAAAGACTCTCCATCTGAGAACTGATTCGAGGAAGGACCGTG
ttttatataatagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcaggttcctgttataaattttgtctatatttttttaatagaattttttttatataatagattaaataatggatggtacttattcattgttaagcagATCTCGTCGTTCAGAGAGAGCAAGTCAGACGATAGACGGTTCTATATATTCACGGCCACAAAGACTCTCCATCTGAGAACTGATTCGAGGAAGGACCGTG
- - - - - cctgtta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggatgg