Sequence
atgc intronic sequence ATGC exonic sequence...tcagtttcttcttgccgtctttatatttaaggtttgttgtctttgccatttgcttttattgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os03g15900.2 (Oryza sativa), 3'ss of exon 13
------------------------------------------------------------------------tcagtttcttcttgccgtctttatatttaaggtttgttgtcttt----gccatttgcttttat-tgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
|| ||||| | || | | | | | || | ||| | | || |||||| ||| | | | | || | | | | || |||| |||||||| ||||| || || ||||| ||||| |||||| ||||||| || |||||||| ||||||||||||||||| || ||||||||||||| |
gtatatgccttttatcatacattacgattaatgtcatattgaatcaccaaggtttacttcatgaaagagaccccaatttctgtggtcagtttgcaaagctgcaactacttctgtttggatgagacttttttttatacgataaaactatgacaataataacatttgttatctttctagACATGCCTTGTTGGAGCAGGACCAGATGGAAAACATACAGCTTTGGAAGCTGTGACAATAGTCCTTGATCTACCACCACCTCAGCCTGGTTCAATGTCTG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 14
tcagt-ttcttcttgccgtctttatat-ttaaggtttgttgtctttgccatttgcttttattgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
|| || || | || | | | ||||| | | ||| | | | | | | || | | | | | || || ||||| |||||||| ||||| || || ||||||||||| ||||| ||||||| || || |||||||||||||| |||||||| || ||||||||||||| |
--agcacatttgatgttatgttagtttgctgtggttttattttttttttctagaatgatgtgcaaatagtaattagaaaaaaaacaaaatttgcctttccagACATGCCTTGTAGGAGCAGGACCAGATGGGAAACATACAGCCTTGGAAGCTGTAACTATAGTTCTTGATCTGCCACCACCTCAGCCTGGTTCAATGTCTG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 15
---tcagtttcttcttgccgtctttatatttaaggtttgttgtctttgccatttgcttttattgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
| | | | | |||| | | ||| ||| | || |||| | ||| | | || || | | | |||||||| || ||||| ||||||||||||||||| ||||| | |||| | |||||||||||||| ||||||||||||||||| ||||| || || |||||| | |
agatgcatgcacacagatacccagttcatttgatcaattttgagtttccttgatgattttgact-taagaatgattgactaa--atgaatagtctgttttcagACTTGTCTTGTTGGAGCTGGTCCTGATGGAAAACATAAAGCTTTAGAAGCAGTCACAATTGTTCTTGATCTACCACCTCCACAGCCAGGGTCAATGCTTG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 15
-tcagtttcttcttgccgtctttatatttaaggtttgttgtctttgccatttgctttt-attgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
| | | | | |||| | | ||| ||| | || |||| ||| | ||| | || || | | | |||||||| || ||||| ||||||||||||||||| ||||| | |||| | |||||||||||||| || |||||||||||||| || || ||||| |||||| | |
atgcatgcacacagatacccagttcatttgatcaattttgagtttccttgatgattttgatttaaaagaatgagtgactaa--atgaatagtctgctttcagACTTGTCTTGTTGGAGCTGGTCCTGATGGAAAACATAAAGCTTTAGAAGCAGTCACAATTGTACTTGATCTACCACCTCCGCAGCCTGGGTCAATGCTTG
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT2G07360.2 (Arabidopsis thaliana), 3'ss of exon 16
tcagtttcttcttgccgtctttatatttaaggtttgttgtctttgccatttgcttttattgatgagatctttcaag--tatttattgac-aattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
|| | || | | || || || | || | | |||||| ||| || ||| || |||||| | ||| || |||| || ||||| |||||||||||||| ||||||||||||||||||||||||||||| ||||| || ||||||||||| |||||||| || || ||| |
---gtatatttgcaaggcttaaattattgtgggatattttactgaatttttgctacctcagatagtattttttaacacaatttatcatctgattgacttctagACATGTCTTGTTGGAGCTGGTCCTGACGGGAAACACACAGCTCTGGAAGCAGTCACGATAGTACTCGATCTACCACCTCCACAACCGGGGTCCATGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatttgcttttattgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
tattgac putative branch site (score: 2)
ttccatttc putative PPT
tttcaagtatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcagtttcttcttgccgtctttatatttaaggtttgttgtctttgccatttgcttttattgatgagatctttcaagtatttattgacaattccatttcagACGTGCCTTGTCGGAGCTGGTCCTGATGGGAAACACACAGCTCTGGAAGCAGTCACAATAGTTCTTGATCTACCACCACCACAACCTGGTTCAATGTTAG
- - - - - cttgccg
- - - - - - - - - - - - - - - - - tgttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaagta