Sequence
atgc intronic sequence ATGC exonic sequence...gccagatttagactaatgattaaataaaataatgcttttgatgtgacttcattctgtgcatctccattaattcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTGAAGTTATACAGTG
Basic information
species | Glycine max |
transcript | GLYMA10G03660.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os07g08400.1 (Oryza sativa), 3'ss of exon 13
gccagatttagactaatgattaaataaaataatgcttttgatgtgacttcattctgtgcatctccattaattcactttgattttgacc-tttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTGAAGTTATACAGTG
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----gtaatacctcttggcttgtttttttttatgcatcttaggcaggta-atcttgaaactcttgtgagctgttatctgaagttgcttacctttattttagATACTTGAGGCGTTGAATAAAGGTGAAATTCCATCAACAGGATCACTTGTAGAAGTATTCAATAAGGCAATTCTTGAGCGCTGCTTAAAGTTGTATAATG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 14
lower sequence: AT2G38840.1 (Arabidopsis thaliana), 3'ss of exon 13
----gccagatttagactaatgattaaataaaataatgcttttgatgtgacttcattctgtgcatctccattaattcactttgattttgacctttcaaat-ttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTGAAGTTATACAGTG
||| | | | | ||| | | || || | | || || ||| | ||| | | | | | || || || | | |||||| | || || || || ||||||||||| ||||||||||| || || || ||||||||||| || ||||| |||||| |||| ||||| | |||| ||
acgttgttgatatgtaacact-attggcttatatgatttctataatatgcctta----tatgcttacgaaatggtatgttgatatattccaattctgattgctagATATTGGATGCGTTAAATAAAGGAGAGATCCCATCAACAGGATCACTAGTTGAGGTTTTCAATAAAGATATTGTTGAGAGATGTGTGAAGCTGTACAATG
upper sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 12
--gccagatttagactaatgattaaataaaataatgcttttgatgtgacttcattctgtgcatctccattaattcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTGAAGTTATACAGTG
| | || ||| | || ||||||| |||| | | | || || | | | || | |||| ||| ||| | | || | || ||||||||||||||||||| ||||| |||||||| |||||||||||||||||||||||||| || ||| ||||||||| ||| ||||| |||| ||||
aagaaggggaaaggataagaaatattgaaaataa-actttcaaattcagtttatgataaac-tttctaacgattctcttcaattataaatttgatatttcagATACTTGAAGCCTTGAATAAAGGGGAGATTCCTTCAACAGGCTCTCTTGTGGAGGTTTTTAATAAGGGTATTCTTGAACGGTGTTTGAAGCTATATAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttcattctgtgcatctccattaattcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTGAAGTTATACAGTG
ttttgac putative branch site (score: 3)
cctttc CT-rich tract
tttcaaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccagatttagactaatgattaaataaaataatgcttttgatgtgacttcattctgtgcatctccattaattcactttgattttgacctttcaaatttagATACTTGAAGCCTTGAACAAAGGAGAGATTCCATCAACAGGCTCTCTTGTGGAGGTTTTCAACAAGAATATTCTTGAGAAATGTCTGAAGTTATACAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - -gcttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattaa