Sequence
atgc intronic sequence ATGC exonic sequence...caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 9
caggttgaaacataa-ccaagata-aaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
||||| | |||||| || | ||| || || | | || ||||| | || || | | ||| ||| |||| ||||||||||||||||||||||||||||||||||| ||||| ||||||||||||||| ||| |||| ||||| || ||||||||||| || |||||||||| |
-------gtacataggctaagatacaaaaaacttgcttactatgcta--------tacgtttt---ggttgtccttctggttgaaggtttcttcttttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGGTCTCTCTGTGCCTGTGGTGATAATTCTATTGCAGATGGCAGTCTTCTTGACTTTCTACGGCAAGTGTCCA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G36670.1 (Glycine max), 3'ss of exon 8
---caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
||| || || | | | | | |||| | || | | |||| | | ||| |||||||||||||| ||||||||||||| | || || ||||| || |||||||||||||| | || | || ||||||||||| ||||| ||| | ||||||| || |
tctgtcaaccaaatatgacttatttctcattttctcttgcaaattttaatctgatacataacacacaaaaa---gtctacaacctctatttattctcttgcagTTCCTGGAGCCTCTTGAACAATGCTATAGATCACTCTGTGCCTGTGGTGACAGACCTATAGCAGATGGAAGCCTCCTTGATTTCCTGCGGCAAGTTTCGA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 8
--caggttgaaacataaccaagataaag--gatctttctaaccgttttgggatatattatg-ttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
| ||| || || | ||| | | | ||||| || |||| || | ||| ||| | ||| | | || ||| |||||||||| || ||||| |||||||||||||| || ||||| ||||| ||||| | |||| |||||||||||||| || ||||| || ||||| || |
agaaaagaaaaaaatgtttaaaccgagactgatgtaatatatcattttgagagatatcttgatcttacagatacctaatcaaagtaaaattgttgtct-----agTTCTTGGAACCCCTTGAACTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGTGCAATTGCCGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 7
caggttgaaac-ataaccaagata--aaggatctttctaaccgtttt--gggatatattatg-ttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
|| ||| ||| || || || ||| | | | |||| | || |||| || | || | || || | | || | | |||||||||| || |||||||||||||||||||| || ||||| ||||| ||||| | |||| |||||||||||||| || ||||| || ||||| || |
gagacaaaaaagatatttaaactagtaatgatgtgaaatatcattttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtcc------agTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 7
--------------------------------------------------------------------------------caggttgaaacataaccaa--gataaaggatctttctaaccgttttgggatatatt-atgtttta--tggat-tctcgtctcgagtgagtctt-------ttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
||| | || | | | | | ||| | | | |||| ||| ||||||| ||||| ||| | || || || || | || ||||| |||| ||||||| || ||||||||||| || ||||| ||||||||| | | |||| ||||||||||||||||| ||| | || ||||| || |
gtacatccattgcttttgctttcgtgtacttttccattaacacagttggggttttattatactgttgctagctatgtttttttgttaacttttagttatttaacatattagtttttggatggatcatggatgaatttatgttttccttggatatctttatttgacagacactaactaaagttaatttgtgtagTTCCTGGAATCTCTTGAACTATGTTACAGATCACTATGTGCTTGTGGTGATAGAGCAATTGCTGATGGAAGCCTTCTTGATTTCATGAGACAAGTCTCCA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G43050.1 (Glycine max), 3'ss of exon 7
-----caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
||| || | || | || ||| | | |||||| || || ||| | ||| | | | | |||| ||||| ||||| ||||||||||||| | ||||| ||||| |||||||| |||||||| | | | || ||||||||||||||||| ||||| | ||||| || |
ataccttatgcatggcatgacaatgagactatatgttttcagaataatcatgatatagta-attatattaaaactc-tataacct---ccaattttttcttgtagTTCCTGGAGCCTCTTGAATTATGTTATAGATCGCTGTGTGCATGTGGTGACCAACCAATAGCTGATGGAAGCCTTCTTGATTTCTTGCGCCAAGTTTCCA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT3G14940.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------------------------------caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattc--tcgtctcgagtgagtcttttttctctt---gcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
| | | | | || | | | || | |||| | || || || | |||| | || | | || ||| |||| || ||||||||||||||||||||||||||||||| |||| || ||| | |||||||| || | | || ||||||||||||||||| ||||| |||||||| || |
gtgagcaacctctatactctgaatttgttccttactaaattgtttcctgattttaacaacttgttagttcttgccattagagtttctatcattatccagccttacacttgtttccc--tcaataatattcacggaattcaattgtgtttactgttcttttattctatttatgcagTTCTTGGAGCCTCTTGAGCTCTGTTACCGATCACTATGTTCATGTGGTGACAGCCCGATAGCTGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCTA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G53310.3 (Arabidopsis thaliana), 3'ss of exon 7
caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
|| | || | | |||||| |||| | || ||| | || | | | |||| | | | || |||||||||| |||||||||||||||||| ||||||||||| | ||||||||||| | | || ||||||||||||||||| ||||| |||||||| ||||
---------gtatcattgcaatta-gaatcttt-taac---tcccggttatgatttggtac-taaaccactctctca---------tgctatttgtgtagTTCTTGGAACCTCTTGAGCTCTGTTACCGATCTCTGTGTTCATGTGGTGATCGTCCAATAGCAGATGGAAGCCTTCTTGATTTCTTGAGGCAAGTCTCAA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G42600.1 (Arabidopsis thaliana), 3'ss of exon 8
---caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtc--tcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
| ||||| || | ||||| || | | || | |||| | | ||| |||||| || | | || || ||| ||| |||| |||||||| |||||||| |||||||| || || |||| || ||||| | || |||| ||||||||||| ||||| |||||| | ||||||||||
atatggattgaaccact-ctaagatcaaagctgttgtt---tgtttcttgtttgattg-attttataattttctaacctttgattgtttctgtttctatccaaagTTTTTGGAGCCACTTGAGCTTTGTTACAGGTCGCTCTGTGATTGCGGTGACAGACCTATTGCTGATGGAAGCCTGCTTGATTTCTTACGCCAAGTGTCAA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 7
caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtctttt-ttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
||| ||| | | | || || | ||| | | | | | ||||| | | || || || | || | || | ||| |||||||||| |||||||| |||||||||||||| || ||||| |||||||| || | |||| |||||||||||||| || || | || |||||||| |
cagattgca-ttttattaatctaccattttttttcctttttgcatagttcttgtctgtttagctggattaggtactgattgggaattatatttttttgtagTTCTTGGAACCTCTTGAACTCTGTTACAGATCACTCTGTGCTTGTGGTGACCGACCAATTGCTGATGGAAGCCTTCTCGATTTTCTGAGACAAGTGTCCA
upper sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 3'ss of exon 7
caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagt--cttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
| | ||| | || | || | || | | | || || || | | || | | | | | | |||| | | || ||||| | ||||||||||| ||||| || ||||| || ||||| |||||||| || || |||| ||||||||||||||||| || || ||||||| || |
--gatgttttcattatcagattttgcaatttgcatagatagtgtatattttagtactgatttttgtttttttttttaaatttttaatttttattttctgtagTTCCTAGAGCCTCTTGAACTCTGCTATAGATCACTCTGTGCTTGTGGTGACCGGCCTATTGCTGATGGAAGCCTTCTTGATTTTTTGCGGCAAGTTTCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
tcttttttctcttgc CT-rich tract
tattatgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caggttgaaacataaccaagataaaggatctttctaaccgttttgggatatattatgttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
