Sequence
atgc intronic sequence ATGC exonic sequence...cctttgcagtgccatttaatgtttcaagtttcaactctcttgcaatgttctgtagatgtatttttttttccttcaatgacttattgttgttctgttgcagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
Basic information
species | Glycine max |
transcript | GLYMA14G08860.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G135839_T01 (Zea mays), 3'ss of exon 8
cctttgcagtgccatttaatgtttcaagtttcaactctcttgcaatgttctgtagat-gtatttttttttcct--tcaatgacttattgttgttctgttg-cagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
| |||| | || | || | | || | || || | ||| | | || | | | || | | ||| | || |||||| ||||| || ||| |||| ||||| || ||||| | ||| ||||||||||||||||| |||||||| |||||||| | || || || ||||||
----aatattgcccgtacatatggcataatctataagctagacacgacttagtccattgcattagtatatcatagttatagatatgtcgttttcgaattttcagGTACCCAAACCCTTCATCATTTACATACGAGAGGCGCTTCTTTAGGCCTTTTGAGTATGCTCTGCAACCTCCACCTTGGTACAGAGATGAACATATAGCT
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 8
cctttgcagtgccatttaatgtttcaagtttcaactctcttgcaatgttctgtagatgtatttttttttccttcaatgacttattgttgttctgttgcagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
| | || || | | | | || || | | ||||| |||| | | || | ||| | | ||| || |||||||| ||| | || |||||||||| ||||| ||| ||||||||||||||| || || ||||| | |||||||||| || || |||
--------------gtaagtgctttacttatta-----tatgtaaatatttttagattcccaagcttttgtcgaatctaaccatggatgtctttctccagATACCCAAATCCGTCATCTTTTACATATGAAAAACGTCTCTTTTGTCCTTTTGAGTATGCGCTGCAGCCTCCCCGTTGGTATAAAAATGACTCTATTGCT
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 7
cctttgcagtgccatttaatgtttcaagtttcaactctcttgcaatgttctgtagatgtatttttttttccttcaat-gacttattgttgttctgttgcagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
| | |||| | | |||| | ||| |||| | | | | | | | ||| || | || | | | |||||| || || ||||||||||| || |||||||||| ||||| ||| ||||||||| ||||| || |||||||| | |||||||||| | || || ||
-----gtaagat--tttattacctgtgatttccatattctc----tgtttttttgtcaggtctgaatgtaacagaatagatgtctttctctgatattgcagATACCCCAATCCATCAGCGTTTACATATGAAAAACGTCTATTTTGTCCTTTTGAATATGCGCTCCAACCTCCCCATTGGTATAAAACGGACTCAATTTCT
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 8
cctttgcagtgccatttaat-gtttcaagtttcaactctcttgcaatgttctgtagatgtatttttttt-tccttcaatgacttattgtt--gttctgttgcagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
||| |||| | || | || | ||| | | |||| || ||||| |||| | | | | | |||| || ||||| | ||||| || ||||| ||||||||||||||||||||||| || ||| |||||||| ||||| || || |||||||| ||||||| || |||||| ||||||
---ttg-agtgtaaattgtttgtcatgaatttttcattcagcaaattgtttatattatttatttattttatttcttatttatttatattttggttctctaatagGTACCCTAATCCGTCAGCATTCACATATGAAAGGCGCCTGTTTTGCCCTTTTGAATATGCACTCCAGCCTCCTCCATGGTATAGAGTAGAGCACATAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttctgtagatgtatttttttttccttcaatgacttattgttgttctgttgcagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
ttgttct CT-rich tract
tagatgtatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctttgcagtgccatttaatgtttcaagtttcaactctcttgcaatgttctgtagatgtatttttttttccttcaatgacttattgttgttctgttgcagGTATCCAAATCCATCAGCATTCACATATGAAAGGCGTCTTTTTGTTCCTTTTGAGTATGCTCTTCAACCTCCTCCTTGGTATAAAGCAGAGCAGATAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT