Sequence
atgc intronic sequence ATGC exonic sequencegtatgcagtcttgaactaactatgctactaatttacattaagctgttgtcaggcgcacctttttattcccactccattttgtttatatcagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
Basic information
species | Glycine max |
transcript | GLYMA03G42150.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G42150.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G00830.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgcagtcttgaactaactatgcta-ctaatttacattaagctgttgtcaggcgcacctttttattcccactccattttgtttatatcagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
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---------gttagatgacttaatcaatctgattgccat--gcttgatcttactta-attgccttactaattatct-tcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
upper sequence: GLYMA03G42150.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G00830.3 (Arabidopsis thaliana), 3'ss of exon 4
gtatgcagtcttgaactaactatgct--actaatttacattaagctg-ttgtcaggcgc-acctt--tttattcccactcca-------ttttgtttatatcagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
|| | | || || | | | | | ||| || || ||| ||| || || | ||| || ||| || | | | ||||| | |||| || |||| | | | | || ||||| ||||| ||||||||||| || || |||||||||||||||||||| | || || ||| | ||||| |
gtggagaacatcgagctcataaaagttagatgactta-atcaatctgattgccatgcttgatcttacttaattgccttactaattatcttcttgttacttgtagGACCCAACAAATACCACTCGTAACCGTGGTTTTGCATTTGTTTTGTACTATAACAATGCATGTGCTGATTATTCAAGACAGAAAATGATAGATTCTAATT
upper sequence: GLYMA03G42150.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g02700.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcagtcttgaactaactatg-cta-ctaatttacattaagctgttgtcaggcgcacctttttatt----cccactccattttgtttatat-cagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
|||||| ||||| | | || ||| | | ||| ||||| | || || | || | | | | | | ||||||||| | ||||||||||||||||| || | |||||||| ||||| |||||| ||||||||| ||||| ||||| |||||| | |||| || ||| | ||||| | |
--gtgcagttttgaattgaaattgactatccaccttattttaaga-atgaatagacgaatgcttatgtgagagtctaatgccttttgtttaattacagGATCCTCAAAATCCAAGCCGTAATCGTGGTTTTGCTTTTGTTGAGTATTACAACAATGCTTGTGCAGATTATGGGAGGCAGAAAATGTCTAGTTCAAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaagctgttgtcaggcgcacctttttattcccactccattttgtttatatcagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
cctttttattcccact CT-rich tract
attttgtttatatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcagtcttgaactaactatgctactaatttacattaagctgttgtcaggcgcacctttttattcccactccattttgtttatatcagGATCCTCAAAATCCTAGTAGGAATCGTGGGTTTGCGTTTGTTTTGTATTACAATAATGCATGTGCTGATTATTCGCGGCAAAAGATGGCAAGTTCTAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG