Sequence
atgc intronic sequence ATGC exonic sequencegtcagttgttgtttcaatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: LOC_Os06g36090.2 (Oryza sativa), 3'ss of exon 17
gtcagttgt--tgtttcaatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
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gtgagttttcttggatcaaaccgtttctttgaactttttattcttcttggaagatcaaag-------taatggtgttattcatgttttatttcagAGGATTCCCAAATGGTGGATCTGGTACTACTGGCTTTGCCCATTGGCATGGACAGTGTATGGGCTCATAGTGACACAGTATGGAGACCTAGAACAAATCA
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA15G02220.1 (Glycine max), 3'ss of exon 22
gtcagt----tgttgtttcaatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
|| ||| | | || | | || | | | || ||| || || || | | | | | | || | || ||||||| ||||||| ||||||| | ||||| || |||||||||||| | |||||||| || |||||| | || || ||||||| ||||| | || |
gtaagtaccattctagtttggttattatgcat-caatataagaattactcgtcatgttctctaacgtaattgcttgtatcaactttggct-tttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCATGGACTGTATATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA13G43140.1 (Glycine max), 3'ss of exon 21
-----gtcagttgttgtttc--aatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
| | ||| | ||| | || || || | ||| | | | | | | || || ||||||| ||||||| ||||||| | ||||| || |||||||||||| | || ||||| ||||||||| | || || ||||||| ||||| | || |
aatgactaaattgataaaaagaaatagcttatttagcaataaaagaattattcttgtcattttctctaacataattcctctatcaactttgacatttcagAAAATTCCTAAATGGTGGGTTTGGTATTATTGGATTTGCCCAGTAGCGTGGACTGTGTATGGGTTAATTGTCTCACAATATGGAGATGTAGAGATAGAGA
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 22
gtcagttgttgtttcaat--caccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
|| ||| || ||| | || || | | | | || | | | || | | || ||||||| ||||||| ||||||| | ||||| ||||||||||| ||| ||||||||||||||||||| | || || | ||||| |||| | || ||||
gtgagt-accattctaatttcgttattatattgaaacaaacatatcttacataatctttactaacataactcttctaccaactttggcttttcagAAAATTCCTAAATGGTGGGTGTGGTATTACTGGATTTGTCCAGTGGCATGGACAGTGTATGGATTAATTGTCTCTCAATATAGAGATATAGAGGACCATC
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: GLYMA08G21540.1 (Glycine max), 3'ss of exon 21
gtcagttgttgtttcaat--caccatccctgcgatccttttcctacctgtaggattaa-atagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
|| ||| || || | | || || | | | | || | | |||| || | | || ||||||| ||||||| ||||||| | ||||| ||||||||||| ||| ||||||||||||||||||| | || || | ||||| |||| | || ||||
gtgagt-accattccagtttcgtaattttattgaaacaagcatatcttacataatccttactaaaaactc---ttctaccaactttggcttttcagAAAATTCCTAAATGGTGGGTGTGGTATTACTGGATTTGTCCAGTGGCATGGACAGTGTATGGATTAATTGTCTCTCAATATAGAGATATAGAGGACCCAC
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 18
------gtcagttgttgtttcaatcaccatccctgcgatccttttcctacctgtag-gattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
|| ||| | |||| || | ||| | ||| || || |||| || || | |||| || ||||| || ||||||||||| ||||||||| ||||| |||||||| || ||| |||| ||||| |||||||| | || || | || ||||| ||| |||| || |
gttagtgttggttact-tttctggcaagaaagctgaaaccctaaatgattctctattgattctatcataagct---ggttttact---ttcctcttgcagAGAATTCCGAAATGGTGGATATGGTATTACTGGATCTGTCCAGTGGCTTGGACTGTGTATGGATTGATTGTTTCGCAGTACGGTGACGTGGAGGATACGA
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: Vv09s0002g03570.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtt-gttgtttcaatcaccatccctgcgatcct--tttcctacctgtaggattaaatagagg---actcatgttttttct--ctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
|| |||| || | | ||| | | || | |||| ||| || | || | ||||| | | || ||||||| |||||| ||||||||||||||||| |||||||||||||| ||||||||||| || ||||| ||||| | ||||| |||||| |||| ||| |
gtaagttcattttcctcagtggcatagccactttcatgccttccaaccaacctcatccactacaaactaactcaaacctccattaatgtttaaaatttcagAAAATTCCCAAGTGGTGGATCTGGTACTATTGGATTTGCCCACTAGCATGGACAGTTTACGGGCTGATCGTATCGCAATATGGAGACTTGGAGGACACAA
upper sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 21
lower sequence: Vv09s0002g03640.t01 (Vitis vinifera), 3'ss of exon 20
gtcagtt-gttgtttcaatcaccatccctgcgatcct--tttcctacctgtaggattaaatagagg---actcatgttttttct--ctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
|| |||| || | | ||| | | || | |||| ||| || | || | ||||| | | || ||||||| |||||| ||||||||||||||||| |||||||||||| | ||||||||||| || ||||| ||||| | ||||| |||||| |||| ||| |
gtaagttcattttcctcagtggcatagccactttcatgccttccaaccaacctcatccactacaaactaactcaaacctccattaatgtttaaaatttcagAAAATTCCCAAGTGGTGGATCTGGTACTATTGGATTTGCCCAGTAGCATGGACAGTTTACGGGCTGATCGTATCGCAATATGGAGACTTGGAGGACACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
ctcatgttttttctct CT-rich tract
attaaataga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttgttgtttcaatcaccatccctgcgatccttttcctacctgtaggattaaatagaggactcatgttttttctctattcctgtttcagAGAATTCCTGGATGGTGGATCTGGTACTACTGGATTTGCCCACTGGCATGGACAGTGTATGGGCTCATCGTGACACAATACGGAGACCTGGAAGACCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA