Sequence
atgc intronic sequence ATGC exonic sequence...ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 2
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgc-tgaatttttaggcatattacct-tgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
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-aggcctattacctgtggcctttgggcatcggctgtttt-ctcattcttgtgtgttgcattgtgtcctgcataaatcattaagcccattctctgtacaacagGTTTCATCCCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTCGCCTCTAAAATCCGAAGCAACTTGACTAATTCAATGAAAGCTCTGG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 2
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
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gacaaccaaattcttagaatattattacatggtagatgtgtagattgtagagtgattgacacttacatgattattttgctttattttttgctcgttttagGTTTCTGCTGCCGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAATCTTGCTTCGAAAATCCGTAATAACTTGACCAACTCAATGAAAGCGCTTG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 2
-ctcaaccatttcttgtggtcattagcaattctta-----ctcgaacatgttattatctattatcctgattgatgctgaattt----ttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
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gtaaaagtgttgtgtgagaatgcaaattgggtttagaactttagaatatagtgcgcttcatgaaagagagattcgttgtgcttatgattagttggtttgtgttgtcttagGTTTCTGCTGCTGAGTATGACAGACAAGCAGTTGCTGACCATGCTAATAATCTTGCTTCGAAAATTCGTGGCAACTTGACCAACTCCTTAAAAGCACTTG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 2
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
||||| | | | | |||| | | || | | | | | | | | | || | | ||| | || || || ||||||| || |||| ||||||||||||| || ||||||||||| || || ||||| ||||||||||||| || ||||| |||||||||||||| || |
gtcaactaaattcttagaatattattacatggtagatgtgtagagtgtagagtgattgacagttaaataattattttgctttattttttgctcgttttagGTTTCTGCTGCTGGCTATGACAGACAAGGAGTCGCTGATCATGCTAATAACCTTGCTTCGAAAATCCGTAATAATTTGACCAACTCAATGAAAGCACTTG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 1
-ctcaaccatttcttgtggtcattagcaattcttactcgaacatgt---tattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
||| || | || | | || ||||| ||| || | || || ||| ||| ||| |||| || || | | ||||| | | |||| ||||| || |||| || |||||||||||||| ||||||||||| |||||| | | |||||||| || ||| |||| | ||| |
gttcatgcactctgctcttgggttgttacattttgttcgaatttgtatgcatcaacttcagtcatgagatatgatgatgttttgaagat----tctgatgatagGTTGCTGCAGCTGGGTATGATAGGCAAGGAGTAGCTGATCATGCAAATAATCTTGCCTCAAAAATCAGAAGTAACTTGACCAATTCATTGAAGGGTCTTG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 2
-ctcaaccatttcttgtggtcattagcaattcttactcgaacatgt---tattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
||| || | | || | || | ||| ||| || | || || ||| ||| || |||| || || | | ||||| | | |||| ||||| || |||| || |||||||||||||| ||||||||||| |||||| | | |||||||| || ||| |||| | ||| |
gttcatgcactctgctgtttggttgttacccattgttggaatttgtatgcatcaacttcagtcatgagatatgacgatgttttgaagat----tctgatgatagGTTGCTGCAGCTGGGTATGATAGGCAAGGAGTAGCTGATCATGCAAATAATCTTGCCTCAAAAATCAGAAGTAACTTGACCAATTCATTGAAGGGTCTTG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 2
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
| || | || | || || | || | | | | ||||||| | | || ||||| | | | || |||||||||||||| || |||||||| ||||||||||| ||| | | ||||||| ||| | || || || ||||| ||||| |
------------------------gtaagttctagctgg-tattggatcgagttctaggaagctctacg-tgaatttcttctttcgcttttttccg-tagGTTGCTGCGGCGGGCTATGACAGACAAGCCGTCGCTGATCACGCAAACAATCTCGCCACCAGAATCCGTGCAAACCTCACGAATTCTATGAAGGCTCTGG
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 2
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
| || | || | | || | || | | | | ||||||| | | || ||||| | | | || |||||||||||||| || |||||||| ||||||||||| || | | ||||||| ||| | || || || ||||| ||||| |
------------------------gtaagttctagctgg-tgttggatcgagttctaggaagctctacg-tgaatttcttctttcgcttttttccg-tagGTTGCTGCGGCGGGCTATGACAGACAAGCCGTCGCTGATCACGCAAACAATCTCGCTACCAGAATCCGTGCAAACCTCACGAATTCTATGAAGGCTCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
ttacctt CT-rich tract
tgaattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcaaccatttcttgtggtcattagcaattcttactcgaacatgttattatctattatcctgattgatgctgaatttttaggcatattaccttgtaacagGTTTCCTCTCCTGGATATGACAGACAAGCTGTTGCTGATCATGCAAACAATCTTGCCTCGAAAATCCGTATCAACTTGACTAACTCAATGAAAGCTCTAG
-tcaacca
- - - - tttcttg
- - - - - - - - - - - - - - - - - - - - catgtta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgctg