Sequence
atgc intronic sequence ATGC exonic sequence...agaagtgcattaaaatgcaaggttgatacagagcaaattcctttgttctcaatggcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
Basic information
species | Glycine max |
transcript | GLYMA17G05410.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 10
agaagtgcattaaaatgcaaggttgatacagagcaaattcct-ttgttctcaatggcaatttttattaaatctaatatttttacc--tgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
|| | | | | ||| || | || || | || | | |||| ||| || | ||| || || | | || | |||||||||| || || ||||| |||||||| ||||| ||||| ||||| |||||||||||||||||||||||||| | |||||
------gcttctgtttcacacaatcatatagtttgatttatagttatattctcttggttcttttgctaatggtatcagtttcactattggttgaactttcgtgcagTATTCGTAGACGCGCTCTTGATTTGCTATATGGGATGTGCGATGTGTCAAATGCAAAGGATATAGTTGAAGAGTTGTTGCAG
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G22770.2 (Arabidopsis thaliana), 3'ss of exon 11
-agaagtgcattaaaatgcaaggttgatacagagcaaattcctttgttctcaatggcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
| ||| || | | ||| || | || | ||| | | |||| | | | ||| || | | || | |||||||||| ||||||||||| ||||| | ||||| ||||||||||| |||||||||||||||||||| ||||| | ||||||
aaatggtggcttccgttttacaaac-atatagtttga-tttatcatctcttggttcttttgcttat--ggtgtcagattcactattggttgaactttcctgcagTATTCGTAGGCGTGCTCTTGATTTATTATATGGGATGTGTGATGTGTCAAATGCAAAGGATATAGTCGAAGAGTTGCTGCAG
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 10
agaagtgcattaaaatgcaag-gttgatacagagcaaattcctttgttctcaatg-gcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
| ||| | || | | |||| | ||| ||| | | | || |||| | || | | || | | ||||||| |||| || || || ||| |||||||||| ||||||||| |||||||||||||||| || ||||||||| ||||||||
--ggtttcatgtttgtttaattatctgcaactggcaagatgttttactctaagcaagggacttacattagcttgcttactgacaatgattttaacctt---gcagTATAAGGAGACGAGCACTTGATCTGCTTTATGGTATGTGTGATATTTCAAATGCAAAGGACATTGTTGAAGAATTACTGCAG
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ34224 (Selaginella moellendorffii), 3'ss of exon 10
agaagtgcattaaaatgcaaggttgatacagagcaaattcctttgttctcaatggcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
| | || || || | ||| || || || ||| | | |||||||||| ||||| |||| |||||||||||||| ||||||||||| ||||||| || ||||| ||||| || || |||||
-----------------------------------------------gtttagaattatcttcatcga-tct--ccttgttcagtgtatt--tctctttgcagTATTCGAAGGCGATCTCTGGATTTGCTTTATGGAATGTGTGATGTAACAAATGCGAAAGATATTGTTGAGGAGCTTTTGCAG
upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ21842 (Selaginella moellendorffii), 3'ss of exon 10
agaagtgcattaaaatgcaaggttgatacagagcaaattcctttgttctcaatggcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
| | || ||||| | ||| || || || ||| | | |||||||||| ||||| |||| |||||||||||||| ||||||||||| ||||||| || ||||| ||||| || || |||||
-----------------------------------------------gtttagaattatctttatcga-tct--ccttgttcagtgtatt--tctctttgcagTATTCGAAGGCGATCTCTGGATTTGCTTTATGGAATGTGTGATGTAACAAATGCGAAAGATATTGTTGAGGAGCTTTTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctcaatggcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
aatttttattaaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaagtgcattaaaatgcaaggttgatacagagcaaattcctttgttctcaatggcaatttttattaaatctaatatttttacctgcattgatttacaagCAGTATTCGGAGGCGTGCTCTAGATTTGCTTTATGGCATGTGTGATGTTTCAAATGCAAAGGATATAGTTGAAGAACTACTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - -tgcatta
- - - - - - - -tgcaagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctgca