Sequence
atgc intronic sequence ATGC exonic sequence...taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgcaccttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
Basic information
species | Glycine max |
transcript | GLYMA02G15330.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os12g39630.1 (Oryza sativa), 3'ss of exon 5
taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgcaccttgattgt---atttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
||||| | | | ||| | ||| || ||| | ||| | || ||| || || | | | ||||| ||||| || || || ||||||||||||||||| |||||||| || || || ||||| ||||||||||||||||| ||||| ||||| ||||| |||
--actttctgtagtagtgaaaagaagagagaactttcgctagatttttctcgatgtgattgctgcctg-gataatattgtactgttgctttctgattttgcagTCATCGGTTCTTCATTCACAACCAAAATCAACAGTTGGAACTCCAGCTTATATTGCTCCAGAAGTTTTGCTCAAGAAAGAATACGATGGAAAG
upper sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g41460.1 (Oryza sativa), 3'ss of exon 3
---taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgcaccttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
| | | || ||| | | | | ||| | ||| ||| | | |||| | | || | | || | |||| |||||| || || || ||||| |||||||||||||| ||||| || || ||||| |||||||| || ||| |||| ||||||||||||||||| |||
ctgtgcatgtgtct-tgtttagcctttcggggaatttgt-gcctggaatcttttt-taactttattctgatcatgtcatgacttttttttcttcatttgtcagTCGTCTGTTCTTCATTCGCAACCAAAATCTACTGTTGGAACTCCGGCATACATCGCTCCTGAGGTTCTGCTGAAGAAGGAATATGATGGAAAG
upper sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 5
taggtttctccatgtccaagatcaagcaaattt-ttttatctgaaatttgtagataacggattagtttgcaatacctatgcaccttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
|| |||| || | || | | | | ||| | | || | | | | | || | || | || | ||||||||||| || ||||||||||||||||| || || || |||||||| ||||| || || |||||| || | ||||| ||||| |||||||||
taaatttcatt-tgcttacaatacactatactggcattactttaggacattatctggtttactctaataagcaaatgataaaagacaatctttttctgcagTCTTCAGTTCTCCATTCACAACCAAAATCCACTGTAGGAACCCCTGCTTATATTGCACCTGAAGTTCTGTTGAAGAAAGAATACGATGGCAAG
upper sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G33950.1 (Arabidopsis thaliana), 3'ss of exon 5
taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgcaccttg-attgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
| | ||| | || | | | |||||| | || || | | ||| || | |||||||||| |||||| ||||||| ||||||||||| || ||||| || ||||| || |||||||| || ||||| || ||||| ||||||||||| |||
-----------------------------gtatctttgaaaacatttcagaaactctgagttagtt---agtatctctaagctttgtgttttctttttcagTCATCAGTGTTACATTCGCAACCAAAATCAACTGTTGGAACTCCTGCTTACATCGCTCCTGAGGTTTTACTAAAGAAAGAATATGATGGAAAG
upper sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 5
-taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgc---accttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
|| | | | | | ||| || | | | | | | ||| |||| || ||| || ||| ||| ||| |||||| |||||||| ||||||||||||||||| || ||||| ||||||||||| || ||||| ||||| || |||||||| |||||||| || |||
ataaaacaatt-gttttgatgttcatctg---ttgctgcccctgcctcttcatgctattttttattttgatatctatatatttaactttggctgtttttctcagTCCTCAGTGCTGCATTCACAACCAAAATCGACTGTTGGAACCCCTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtagataacggattagtttgcaatacctatgcaccttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
tatttttc CT-rich tract
ttgattgtattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggtttctccatgtccaagatcaagcaaatttttttatctgaaatttgtagataacggattagtttgcaatacctatgcaccttgattgtatttttcagTCTTCAGTGCTACATTCACAACCAAAATCTACAGTTGGTACCCCTGCATATATCGCTCCAGAAGTTTTGCTTAAGAAGGAATATGATGGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - catgtcc
- - - - - - - - - - -tcaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcacct