Sequence
atgc intronic sequence ATGC exonic sequence...ttgggtgcttatcaaagtttgaactcatgctttttgcttgaacaataaatatttttggtctgcttttattcttcatgtgtgtaattacattatcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
Basic information
species | Glycine max |
transcript | GLYMA13G31830.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G31830.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g37740.1 (Oryza sativa), 3'ss of exon 5
ttgggtgcttatcaaagtttgaactcatgctttttgcttgaacaataaatatttttggtctgctttta---ttcttcatgtgtgtaattacatta-tcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
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tttagaataacaaggtgttcagactaata----taacttatgcattaaacatttctcacgggctattaaacttatgccactttattggtataacacttttgcagCTGGTATTGTCATTGAGGAGAAAAACTGGCCTCCATTTCTGCCACTCATCCATCATGATATCACCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA
upper sequence: GLYMA13G31830.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G041181_T01 (Zea mays), 3'ss of exon 5
ttgggtgcttatcaaagtttgaactcatgctttttgcttga-acaataaatatttttggtctgcttttattcttcatgtgtgtaattacattatcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
|||| ||| ||| | | | | | | || | | || ||||| || | || | | | | | |||| || | | ||||||| ||||| |||||||||| |||||||| || ||| | ||| | ||||||||||||||| | ||||| || || | ||| ||||||||| |||| ||
ctgggc-cttgtcatgaagattatttgttccatgtttttaatataaagctcattttgtttcagaggttgctaagcttacattttattattttgtttggcagCTGGCATTGTCATTGAGGAGAAAAATTGGCCTCCTTTTCTGCCACTCATCCATCATGATATCACCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA
upper sequence: GLYMA13G31830.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G448715_T01 (Zea mays), 3'ss of exon 5
ttgggtgcttat-caaagtttgaactcatgctttttgcttgaacaataaatatttttggtctgcttttattcttcatgtgtgtaattacattatcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
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cagggcattggcatgaaaattattttgatccatgtttttaagataaagttcattttgtttcacaagtttctaagcttacatttcattat-ttgtttggcagCTGGCATTGTCATTGAGGAGAAAAATTGGCCTCCTTTTATGCCACTCATCCATCATGATATCATCAATGAGATACCGAGTCACCTTCAAAGAATGCAATA
upper sequence: GLYMA13G31830.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 5
ttgggtgcttatcaaagtttgaactcatgctttttgcttgaacaat-aaatattt--ttggtctgcttttattcttcatgtgtgtaatt----acattatcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
|| || | | | || ||| || | ||| || ||| ||| | || || | | || | || | | || || || | || ||||||||||||||||||||||||| |||||||| ||||| ||||||||||||||||||||||| || |||||||| || |||||||| |||| ||||||||
-------ctaataacattatggacttattcaatttcctcaaacctccaaacaccccattagtttttccatgcaatttacgtttcaagttttctactttgttttccagCTGGAATTGTTCTTGAGGAGAAAAATTGGCCACCATTCTTCCCAATTATCCATCATGATATTGCGAATGAAATACCGATTCATCTACAAAAGTTGCAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatatttttggtctgcttttattcttcatgtgtgtaattacattatcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
ttatctt CT-rich tract
taattacattatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgggtgcttatcaaagtttgaactcatgctttttgcttgaacaataaatatttttggtctgcttttattcttcatgtgtgtaattacattatcttacagCTGGAATTGTTCTTGAGGAGAAGAATTGGCCGCCATTTTTCCCAATTATCCATCATGATATCGCTAATGAAATTCCAATTCATCTTCAAAGATTGCAGTA
ttgggtg
- - - - - - - - - - - - tcatgct
- - - - - - - - - - - - - - - - - tgcttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt