Sequence
atgc intronic sequence ATGC exonic sequence...tgtagtttttaactgaattattaactataactataagtaatcttttcactttcatttcctttagaagtctagatgatatatattatatgcattcctgtagGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
Basic information
species | Glycine max |
transcript | GLYMA15G40370.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G40370.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g49970.2 (Oryza sativa), 3'ss of exon 3
tgtagtttttaactgaattat---taactataactataagtaatcttttcactttcatttcctttagaagtctagatgatatatattatatgcattcctgtagGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
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------gtatagcaaaagtatatgtatattttaccatatgttctctctttctggttgtattaacgtggggcatt-acaactcctaattcttcaacaacaatagGCATTTGGTGCAATGAGAGCTCGGGGTGCTAGGGTAACTGATATCTGTATCATTGTTGTCTCTGCGGATGATGGTGTTCGTCCACAAACAAATGAGGCAA
upper sequence: GLYMA15G40370.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G007038_T01 (Zea mays), 3'ss of exon 3
-----tgtagtttttaactgaattattaactataactataagtaatcttttcactttcatttcctttagaagtctagatgatatatattat--atgcattc---ctgtagGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
| || | | | | || ||| || | | | | | | || ||| || | | | ||| || || |||| | || | || |||| ||||| |||||||||||||| ||||| || ||||| || || |||| ||||||| ||||| |||||||| |||| || ||||||| ||| || |
gtgtatatatatataacttctgttgttatgta-gtccacagttcacccgttttattttatgtacactt-aagcatatgccattactattcttaattctttgagatctcagGCGTTTGGTGCAATGAGAGCTCGAGGAGCTAGAGTAACCGATATCTGTATTGTTGTTGTTGCTGCGGATGATGGTGTTCGGCCACAAACAAGTGAGGCAA
upper sequence: GLYMA15G40370.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G17220.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------------tgtagtttttaactgaattattaactataactataagtaatcttttcactttcatttcc-----tttagaagtctagatgatatatattatatgcattcctgtagGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
| || || | | | | || | | | | | | |||| | ||| | | ||| | | || | || |||| || | ||||||||||| |||||||||||||| |||||| | || || |||||||| || ||||| || |||||||||||||| ||||||||||||||||||||||| |
gtagattctttttcttgcaattgaatcttcgcatgttcatttctgatgctgaagtatcattaattatacttcatgagctttcttacatgtagcatgtttattgactatctcacatctattgctaggcataccatagttttactcatcttacttttatgtcctcatctagGCATTTGGTGCAATGAGAGCTCGCGGAGCACGAGTCACTGACATTGCAATCATTGTGGTTGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAAGCAA
upper sequence: GLYMA15G40370.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0027g00130.t01 (Vitis vinifera), 3'ss of exon 3
-tgtagtttttaactgaattattaactataact-ataagtaatcttttcactttcatttcctttagaagtctagatgatatatattatatgcattcctgt--agGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
| ||| || || ||| | |||| |||| | |||| || | || | |||| || | |||||| | | ||| | |||| ||||| || |||||||||||||||||||| || || ||||||||||||||||||||||||||||||||||| |||||||||||||||||||| || |
aaccatcattttaccatttttctaatggccttttataaactcaattttgagcttcaatttcctt---gcttgagataat-tctattatgtcctcccctttgaagGCGTTTGGGGCGATGAGAGCTCGTGGAGCAAGGGTTACCGACATTGCTATTATTGTTGTGGCTGCTGATGATGGAATTCGTCCTCAAACAAATGAGGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcactttcatttcctttagaagtctagatgatatatattatatgcattcctgtagGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
cattcct CT-rich tract
tctagatgatatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtagtttttaactgaattattaactataactataagtaatcttttcactttcatttcctttagaagtctagatgatatatattatatgcattcctgtagGCATTTGGAGCAATGAGAGCTCGTGGAGCAAGCGTAACAGACATTGCTATTATTGTTGTGGCTGCTGATGATGGGATTCGTCCTCAAACAAATGAAGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC