Sequence
atgc intronic sequence ATGC exonic sequence...tttttgataggaaaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G03580.1 (Glycine max), 3'ss of exon 14
tttttgataggaaaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
|| || || | || | || ||||| || | | || || | | | | | || || ||||||| |||||| |||| | ||||| ||||||||||| || || |||||||||||| |||||| ||| |||||||| || ||||| || |||||||| |
-----------gtactttcgtgtccctcattaaatcttcattattttgatagtcttgatagttgacacttgtaatatttttgttga---ttaatgttcagGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGCACTGCACATCGAGTTGTTGGTGGTTTACCACCGC
upper sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 13
tttttgataggaaaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
|| | | || | |||| || || ||| || | | || | | || || || || || ||||||| |||||| |||| | ||||| ||||||||||| || || |||||||||||| |||||| ||| |||||||| || ||||| || |||||||| |
-----------gtacttccttgtccct--tattaaa---tcttcattattttggtagtcttgatacttatcatgtttttattta----tttaatgttcagGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGCACTGCACATCGAGTTGTTGGTGGTTTACCACCGC
upper sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G03590.1 (Glycine max), 3'ss of exon 14
tttttgataggaaaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
|| | | |||||| || | ||| | | | || || | | || | | | || ||| ||| ||||||| |||||| |||| | ||||| ||||||||||| || || |||||||||||| |||||| || |||||||| || ||||| || ||||||||||
------gtacttccttgtcccttactaaatcttcat-tattttgatagtcttgatagttgacacttgtaatatttttattgattaacgttc-------agGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGTACTGCACATCGAGTTGTTGGTGGTTTACCACCAC
upper sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 11
tttttgataggaaaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatt----tttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
|| | | || | || | | || || || || | | |||||| | ||| | | ||| || ||||||| |||||| |||| | ||||| ||||||||||| || || |||||||||||| |||||| ||| |||||||| || ||||| | |||||||| |
-----------gtacttccttgtccc-----ttagtaaatcttcattattttgatagtcttgatag--ttgatatttataatcattttgttgattaatgttcagGGTGGATATGCTGCAAATTTAGCTCCTGCAAAATTAGTTGGCAAATTGCTCAACTTTTTTGATAGCACTGCACATCGAGTTGTTGGTAGTTTACCACCGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
aactgat putative branch site (score: 3)
ttccattttt putative PPT
taaataaacattccat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgataggaaaccttttggttctaaatattgggattctttttttgccctgggagaaaaaaaggaactgatatctgtaaataaacattccatttttagGGTGGGTATGCTACAAACCTGGCTCCAGCAAAATTAGTGGGTAAGTTGCTCAACTTTATTGATAACACCGCACATCGTGTGGTTGGAGGCTTACCACCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - aggaaac
- - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa