Sequence
atgc intronic sequence ATGC exonic sequence...cactgtcgaacatctttcaattttattctgtgctttaggtgcacgctgcttccaccatgatgtttgacaactactatatttatgagttttatttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 21
-------------------------------------cactgtcgaacatctttcaattttattctgtgcttta-ggtgcacgctgcttccacca--tgatgtttgacaactactata-tttatgagttttatttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
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gtaagagaaaacactatcggaagtccaaacagttcaatatccgtgaagatcctttagttatttacaataaataatagtttacttgcccttaatcaggtgatgttaagtaactgttgtaatttatgcctttctcttttatagCTATACAAAATAATGAAAGAGCACAAAAATCCAAAGGTGCTTAGCGAGGGTATTCTTTGGATGGTTTCTGCCGTTGAGGACTTTGGGATCTCCAATTTAA
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA10G35140.1 (Glycine max), 3'ss of exon 23
cactgtcgaa--catctttcaattttattctgtgctttaggtgcacgctgcttccaccatgatgt-ttgacaactactatatttatgagttttatttt--tatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
| | || || || | ||| | || | | | || || | | | |||| || ||| || | | | | | ||||| | ||||||||||| || ||||||||||| |||||||||||||||||||||||||| ||| | |||||||| |||||||| ||||| ||||| |||| || |||
---tataaaatgcaggttgtatcttttggccgtatatcatattatttttgttt--atctttatgtattatcaaataatgtttgaaaaccgtgaattttactgtagCTTTACAAGATCATGAAGGAGCATAAGAATCCCAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 21
cactgtcgaacatctttcaattttattctgtgctttaggtgcacgctgcttccaccatgatgt-ttgacaactactatatttatgagttttattttta---tagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
|| | | |||| || || | | | | | | | | |||| || ||| || | | | | | | | | ||||| ||||||||||| || |||||||||| |||||||| ||||||||||||||||| ||| | |||||||| |||||||| ||||| ||||| |||| || |||
----ttcatataaaattcaggttgtaccttttggctgtataatatttttgtttatctttatgtattatcaaataatgtttgaaaaactctaaattttactgtagCTTTACAAGATCTTGAAGGAGCATAAGAATCCTAAGGTTCTTAGTGAGGGAATTTTGTGGATGGTTTCTGCTGTTGAAGATTTTGGTGTCTCACATATAA
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
lower sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 21
cactgtcgaacatctttcaattttattctgtgct--ttaggtgcacgctgcttccaccatgatgtttgacaactactatatttatgagttttatttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
| |||||| || ||| || | ||| || | || || | | || || | || | ||| ||||||| |||||| ||||| ||||||||||||||||||||||||||||| || | | |||||||| || || || || |||||||| |||| ||| |
-------------------------gtatgtgctggttcggt-caactttctttgactttcattttattctgatcataatgacatatggcttttgtttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
lower sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 12
--------------------------------------------------------------------------------cactgtcgaacatctttcaattttattctgtgctttaggtgcacgctgcttccaccatgatgtttgacaactactatattt--atgagtttta--tttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
| | || | | | | | | | | || | || | | | || || | ||| ||| ||| | | |||||||||||||||||||| ||||| |||||||||||||| ||||| ||||||||||| || | |||||||| || || || ||||||||||| | || |||| |
gtaagtcaagtttctatcgggcttgaagcttctgtttctctatttggtttgatataaaaacttccttagaattaatatttttatatagattgtgtctatactgaagcatagatatctattggccattgttgtttcagtaatcttgacttggtcatatttttctatggatgatgcttttttatagCTTTACAAAATCATGAAAGAGCACAAGAATCCAAAGGTCCTTAGTGAGGGCATCTTGTGGATGGTTTCAGCAGTTGAAGACTTTGGTGTTTCACATTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcttccaccatgatgtttgacaactactatatttatgagttttatttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
gtttgac putative branch site (score: 4)
ttttattttt putative PPT
aactactatatttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactgtcgaacatctttcaattttattctgtgctttaggtgcacgctgcttccaccatgatgtttgacaactactatatttatgagttttatttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA