Sequence
atgc intronic sequence ATGC exonic sequence...attaaggcttaagttcttcatttaattcttgtcaagattcaagagtcaagacattttatagaatttgagttcttgataaaagattcatgttaccttgcagATTGAGCTCAGGCGGGCATATAACTGTGAGATCATGCTTACAAAAGTCAAAATCCCTTTGCCTGATCTGATG
Basic information
species | Glycine max |
transcript | GLYMA17G33930.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G25050.2 (Arabidopsis thaliana), 3'ss of exon 5
------------------------attaaggcttaagttcttcatttaatt--cttgtcaagattca------agagtcaagacatttt-atag--aatttgagttcttgataaaagatt-catgtta-ccttgcagATTGAGCTCAGGCGGGCATATAACTGTGAGATCATGCTTACAAAAGTCAAAATCCCTTTGCCTGATCTGATG
| | | ||| ||||| | | || ||| ||| |||| | | |||| || | || | | | ||| | | || || | ||| ||||||||||||||||| || ||||| ||||||||||||||||| | ||||| ||||| |||||||||||| |||||
gtaattgattgcaatgaacattctactgttccctaatttcttaagtcttttaatttgcgaagtttcacagcatgaaattaagatccattgacagttactctattttcgtcctctaactttgtctattagttttgcagATTGAGCTCAGACGAGCATACAACTGTGAGATCATGCTCTCTAAAGTTAAAATACCTTTGCCTGATTTGATG
upper sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G32400.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------attaaggcttaagttcttcatttaatt--cttgtcaagattca------agagtcaagacatttt-atag--aatttgagttcttgataaaagatt-catgtta-ccttgcagATTGAGCTCAGGCGGGCATATAACTGTGAGATCATGCTTACAAAAGTCAAAATCCCTTTGCCTGATCTGATG
| | | || ||||| | | || ||| ||| |||| | | |||| || | || | | | ||| | | || || | ||| |||||||||||||||| || ||||| ||||||||||||||||| | ||||| ||||| ||| |||||||| |||||
gtaattgatagcaatgagcattctactgttccctagtttcttaagtcttttaatttgcgaagtttcacagcatgaaattaagatccattgacagttactctattttcgtcctctaactttgtctattagttttgcagATTGAGCTCAAACGAGCATACAACTGTGAGATCATGCTCTCTAAAGTTAAAATACCTCTGCCTGATTTGATG
upper sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g06530.t01 (Vitis vinifera), 3'ss of exon 7
-attaaggcttaagttcttcatttaattct-tgtcaagattcaagagtcaagacattttatagaatttgagttcttgataaaagattcatgttaccttgcagATTGAGCTCAGGCGGGCATATAACTGTGAGATCATGCTTACAAAAGTCAAAATCCCTTTGCCTGATCTGATG
| | | | | | ||||||| | | || | | || | | | | || | | | || | | ||| |||||||||||| || ||||| |||||||||||||| ||||||||||||||||| || || || ||||||||| |||||
tcccccaaccttactcttgcctttaattatgtctctccaataaaatgattaatgtaagaagaatatctaaatctctgttttttatccctggtt--cttgcagATTGACCTTAGGCGAGCATATAACTGTGAAATCATGCTTACAAAAGTTAAGATGCCATTGCCTGATTTGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaagacattttatagaatttgagttcttgataaaagattcatgttaccttgcagATTGAGCTCAGGCGGGCATATAACTGTGAGATCATGCTTACAAAAGTCAAAATCCCTTTGCCTGATCTGATG
tcttgat putative branch site (score: 4)
ttacctt putative PPT
acattttatagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaaggcttaagttcttcatttaattcttgtcaagattcaagagtcaagacattttatagaatttgagttcttgataaaagattcatgttaccttgcagATTGAGCTCAGGCGGGCATATAACTGTGAGATCATGCTTACAAAAGTCAAAATCCCTTTGCCTGATCTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - -cttcatt
- - - - - - - - - - - - - - -tgtcaag
- - - - - - - - - - - - - - - - - - - - - - - caagaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgt