Sequence
atgc intronic sequence ATGC exonic sequence...gttggctaagcggacaatagttataatacaccttgcagatctttattattgatttttaacttgtggcttattgttaattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
Basic information
species | Glycine max |
transcript | GLYMA10G42600.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g43576.1 (Oryza sativa), 3'ss of exon 5
gttggctaagcggacaatagttataatacaccttgcagatctttattattgatttttaacttgtggcttattgt-taattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
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gtttgatctttgagcaactttgccagcgctttttatatcctcctggacttcctttgtt-cttgt----tgttgtatcatccaatgctccttgcttatacagCCAACAGAAAGACACTTGCGGGTCAGAGAATATGTGACTCCTGAGAAGTTTGATTTCTGGAAGGAGTATGGGGAATCTCTGGGTTTTCTTTATGTTGCTA
upper sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G08415.1 (Arabidopsis thaliana), 3'ss of exon 5
gttggctaagcgga-caatagttataatacaccttgcag-atctttattatt----------gatttttaactt-gtggcttattgttaattcaaaa--gattttattgttgca-------gCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
|| |||| | ||| | | | | | ||| || |||| ||| || || | || ||| |||| | || | ||||| || ||||||||| ||||| | ||||| ||||||||||| || ||||||||||||| |||||||||| |||||| ||||| || || ||| ||||||| || |
gtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA
upper sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 5
gttggctaagcggacaatagttataatacaccttgcagatctttattattgatttttaacttgtggcttattgttaattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
| | |||| || | || ||| ||| || | || | || | | | || || | ||| ||||||||||||| || ||| | |||||||||||||||||||| ||||||||||||||||||||||| ||||| ||||| || ||||| || ||||||| ||||
ataagaggcatccacaaaagcagcctcagacaacgcacatcaactaacttcagttcaagtttttaaacagatctattaataagtacttatgttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
upper sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ08741 (Selaginella moellendorffii), 3'ss of exon 5
gttggctaagcggacaatagttataatacaccttgcagatctttattattgatttttaacttgtggcttattgttaattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATC---TATTGGTTTTTGTTATGTAGCTA
| |||| || | | | | || || || || | | ||||| | || ||| || | ||||||||||| ||||| | || || |||||||| | ||||| |||||||| | |||||||||||||||||||| || | || ||| | || || |
---------gtaagtgatagcaatgaagtgacgagta------------tgcttgtttacct-tagctta---------cgaacgatcttcccg--acagCCAACTCCTGTGCACCTCACGGTGAAAGAGTACATAACTCCGGAGAAGTTCGACTTCTGGAAAGAATACGGGGAGTCAGTCGTCGGGTTTCGATACGTCG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattgatttttaacttgtggcttattgttaattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
ttttatt CT-rich tract
ttattgttaattcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggctaagcggacaatagttataatacaccttgcagatctttattattgatttttaacttgtggcttattgttaattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - ccttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggctt