Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgccagacttccaactgtaatttgatatgttttactcattcattaccattattttaaaaagcatgtttcttcccaccagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 7
--------------------------gtaaatgccag-acttccaactgta-atttgatatgtttt--actcattcattaccattat-tttaaaaagcatg------tttcttcccaccagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
|| | | | | || || | || |||||| |||| |||| | ||| |||||| |||| ||| | || ||| ||||| || || |||||||||| ||||| |||||||||||||| || ||| | |||||||| || |||||||| |||||||| ||||||||||||||||| ||
gtacagcagatatctgtttccattgattatacatcggcatatctcacaacatatgtgatatatttttaactccatgattttcattatgtttataaaattttgtggccttctttcgttccagTAACTGAGTTGTGTGAATATGCTGGAAATGTTGATGTACCAATCGCACGTGAGTCTATTCGAGCAGTTGGGAAAATAGCGCTGCAGCAGTATGATGTGAA
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------gtaaatgccagacttccaactgtaatttgatat----gttttactcattcattaccattattt--taaaaagcatgtttcttcccac--cagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
| ||| ||| || || || || || || | | | | | || | || | | | | | || || || |||| || ||| | |||||||| |||| |||||||| | || ||||||||||| || || || || ||||| || |||||| |||||||||||||||| ||
gtaagtaacttcaatttgctatagagagaaatggttaggggaaggagtaattgatgtaagatttgcatttggtgttctattccctggtctgaggctgcccgtcttatgacttactcatgaacttcttggatctcatttcagTGACAGAATTATGTGAATATGCTGCAAATGTTGACATTCCCATTGCAAGGGAATCAATTCGAGCTGTTGGGAAGATAGCATTGCAGCAGTATGATGTCAA
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------gtaaatgccagacttccaactgtaatttgatat----gttttactcattcattaccat--tattttaaaaagcatgtttcttcccac--cagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
| || ||| || || || || || || | | | | | || || || | | | | || || || |||| || ||| | |||||||| |||| |||||||| | || ||||||||||| || || || || ||||| || |||||| |||||||||||||||| ||
gtaagaaacttcaatttgctatagagagaaagggttaggggagggagcgattgatttaagatttgcatttgatgttctattccctggtctgaggctgcctgtcttatgacatattcatgaacttcttggatctcatttcagTGACAGAATTATGTGAATATGCTGCAAATGTTGACATTCCCATTGCAAGGGAATCAATTCGAGCTGTTGGGAAGATAGCATTGCAGCAGTATGATGTCAA
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 7
lower sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------------------gtaaatgccagacttccaactgtaatttgatatgttttactcattca--ttaccattatt-ttaaaaagcatgtttctt---cccac--cagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
|||| || | | | | | | |||| ||| | | || | | ||| | | | || || ||| |||| || ||| | |||||||| |||| ||||||||| | || |||||||| ||||| ||||| || ||||| |||||||||||||||||||||||||| ||
gtaagcaaataacatctcattttcactaaagcctcacatgaaatatttgcatgagtaactgtgcgttctgtccttttggtgacccacctttttctccataaactttcaagtatgactgatgtgtgatcttattgagtccattacagTGACGGAATTATGTGAATATGCTGCAAATGTTGATATTCCCATTGCAAGAGAGTCAATCCGGGCTGTTGGGAAAATAGCACTGCAGCAGTATGATGTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgttttactcattcattaccattattttaaaaagcatgtttcttcccaccagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
atttgat putative branch site (score: 5)
tgtttcttcccacc putative PPT
attcattaccattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgccagacttccaactgtaatttgatatgttttactcattcattaccattattttaaaaagcatgtttcttcccaccagTCACCGAACTGTGTGAATACGCTGGGAATGTTGATGTACCGATTGCAAGGGAGTCTATCCGCGCAGTTGGAAAAATAGCACTGCAGCAGTATGATGTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG