Sequence
atgc intronic sequence ATGC exonic sequence...gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 5
------gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
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tttcaacttacacaaatgattctat-tacagtagtattgtatcactgcatgctgatttttgttttcacatg--ccccctgaattgacagttttcattctt---cagGTTACTTTTGTTGAAGCTCTTGACCAGCTAATGCCTGGTTTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTCCTTATCAACCCTCGGAATATAGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaat-ttactcaattcaaaattgg------gcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
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-------aatatttaatctttatactatttcctttttttttaaaaaaaattatgatccctaatttattcctgaaaagattagcaaattaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------------------------------gctggatgaattctagaatgctccttagacatct-gttgcctgatgaatatgattgtt--ctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
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gtagtacttctcttctgatatatttttttttatcctttctcaattgtattttgttcatgagaagaactgacaatagttttccaatttttcttttatgacgtttgaaagttttttatattatctcattgtttgaaaagttagaaacctaatttgtgcagaagagatatagttggtaataatggtactctgcagGTTACTTTTATTGAAGCTTTAGACCAGCTCATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTTCTCATAAATCCCCGGAATATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 5
-gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaa-aattgg------gcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| | | || | ||| | |||| || | | ||| | || | | | || || | || || ||| || |||||| ||||||||||||| | |||||| | || || || |||||||||||||||||||||||| || || || ||||| || ||||| ||||| ||||| |||||||
agtccaagaagttaaaaaatattta------atct-ttattttaaaaattt-atgatccctaatttatccctgaaaagataagcaaagtaataattggtattctgcagGTTACTTTTATAGAAGCTTTAGATCAACTTATGCCTGGATTTGATCCTGAAATTAGCAAGTTGGCTCAGAGGGTCCTTATAAATCCCCGGAATATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 5
-gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaa-----ttgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
|| | ||| ||||| | ||| | | || | || || || | |||| | | | | || | || ||| |||||| |||||| | ||||| || || ||||| |||||||||||||||||||| || || |||| ||||| ||| | || ||||| | || |||||||
ttttgtgtaaatagtagaaaa----taagattttaaggtaccaatctgt-tggtt-tttcgatttaaattgtagttactgatcgaaaacggaaaccttttgtgcagGTAACTTTTATAGAAGCACTGGATCAGCTAATGCCTGGATTTGATCCTGAGATCAGTAAGCTAGCTCAGAGGGTTTTGATAAATCCAAGAAAGATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 5
--gctggatgaattctagaatgctccttagacatctgt-tgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| | || | | || | | | | || | || ||| | ||||| | | || || || | ||| ||||| |||||| ||||||||||||| ||||| |||||||||||||||||||| |||| || || ||||| |||||||| || ||||| |||||||||||||
tagttattgtcatctttgttctcttttctcataatggaacaacttacacttagaatttcatt---ttaatgtaaatcaagttgaccataatgatattccacagGTAACTTTTATTGAAGCTCTTGATCAGCTTATGCCTGGATTTGATCCTGAGATTGGGAAGTTGGCCCAAAGAGTTCTAATAAATCCACGGAAAATTGACT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgt-tgcctgat-gaatatga---ttgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
|| | || | | | |||| |||| | | ||||| |||| || || || | |||| || | || || |||| ||||||||| |||||||||||| | || ||||| |||||||| ||||||||||| |||| ||||| || | | | ||||| || |||||||| |||||||| |
-ctccacttttttttggtt--ctcttaataatctatataactgattaaatacagaatttttttatagccgagtcacc--aagctgaccacagcattattgtgcagGTTACATTTGTTGAAGCTTTAGATCAGCTTATGCCTGGCTTTGATCCTGAGATTGGGAAATTGGCTCGGCGGGTTCTAATTAATCCTCGAAAAATTGATT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| || ||| | | | | || | ||| ||| | || | |||||| |||||||| |||||||| || || |||||||| || |||||||||||||| | || | || ||||| | || ||||||||||| |||||||| |
----------------------------------------------gtttgcgagtttttcttctttcctttt---tctacagaatacgcgat-gtgcagGTGACTTTTGTGGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTGCTGATCAATCCTCGAAAAATTGATT
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 5
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
| || | | || ||| || | || ||| | || | |||||| ||||||||||||||||| || || |||||||| || |||||||||||||| | || | || ||||| | || ||||| ||||| |||||||| |
--------------------------------------------------gtttagtttttcttctttccttt--ttctatagaatacgcgat-gtgcagGTGACTTTTGTTGAAGCTCTGGATCAACTGATGCCAGGCTTTGATCCTGAAATCGGGAAGCTTGCTCAGAGGCTCCTGATCAACCCTCGAAAAATTGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
agttaat putative branch site (score: 4)
aattcaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctggatgaattctagaatgctccttagacatctgttgcctgatgaatatgattgttctcagttaattcacttgaatttactcaattcaaaattgggcagGTTACTTTTGTTGAAGCTCTTGACCAGCTGATGCCTGGATTTGATCCTGAAATTGCAAAATTAGCCCAGAGAGTTCTTATCAATCCTCGGAAAATTGACT
-ctggatg
- - - - - - - - - tgctcct
- - - - - - - - - - - - - - - - ctgttgc
- - - - - - - - - - - - - - - - - - - -ctgatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgaat