Sequence
atgc intronic sequence ATGC exonic sequencegttggttcttgttgatctgatcacctacattttggggtttgagcttatgagctggttaatattttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G155837_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g52630.1 (Oryza sativa), 3'ss of exon 15
gttggttcttgttgatctgatcacctacattttg----gggtttgagct----tatgagctggttaatattttg--tattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
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gtaggttccagcctagctgataaagtatacttttacccggcaaaaagataaagtatactttagcttataatcaagtcatgattatctcttgtttttggtgcagGGCGAACGTAAGGAGAGGAACTTTGACATCAGGAAGGCCACAGGCGGTAAATCTTACACTGCTGTTAAGAAGCAGTACCTCATCCCTGTCACCAAAAACT
upper sequence: GRMZM2G155837_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g52640.3 (Oryza sativa), 3'ss of exon 17
-------------------------------------------------------------------gttggttcttgttgatctgatcacctacattttggggtttgagcttatgagctggttaatattttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
|| || || | || | || || ||| ||||| |||| || | | | | || | || |||| |||||| || || ||||| || |||||||||||| |||||||||| | ||||| | |||| || |||||||||||||| || ||||| | ||||| ||| ||||||| |||||||
gtaggttaaggtttgacacagaatttgggtttgaagacacagccttggaaaagcttatagattattcctttttttcgcttaaaaaaataaactgcacttttcggttt-agctcataatcagctcaagaatta-----atttcatcttgtttttggtgcagGGTGAACGTAAGGAGAAGGACTTTGACATCAAGAAGGAAGCAGGTGGTAAATCTTACACTGCAGTTAAGAAGGATTATATCGTTTCTGTCACCAGAAACT
upper sequence: GRMZM2G155837_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g52600.1 (Oryza sativa), 3'ss of exon 17
gttggttcttgttgatctgatcacctacattttggggtttgagcttatgagctggttaatattttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
|||||||||||| | || || | || |||| | || |||||| | | | || ||||| || || ||| || ||||| || ||| ||||||||||||||||||| ||||||||| |||| | ||||||||||||| ||| ||||| |||| |||||||| || | |||||
gttggttcttgtctagcttataaacttttttttttgttt--agcttacaatcaattcaagatttt-------cttgtcatgttttttctgcagGGTGAACGTCAGGAGAAGAACTTTGACATCAGGAAGGCAGCAGGCGATAAATCTTACACTGTTGTTAAGAAGTCATATAAAGTTCCTGTGACCAAAAACT
upper sequence: GRMZM2G155837_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g52614.1 (Oryza sativa), 3'ss of exon 13
gttggttcttgttgatctgatcacctacattttggggtt-tgagcttatgagctggttaat--attttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
|| |||||||||| | || || | ||| |||| || | |||| || | | ||| | || | || | || ||||| || || |||||||||||||||||||| |||||| || |||| | ||||||||||||| ||| ||||||| || | |||||||| || | |||||
gtcggttcttgtttagcttataaactattttttttatttatatatttatttatcttacaaccaagtcaacattttcttattttatttttt-tgcagGGTGAACGCAAGGAGAAGAACTTTGACATCAGGAAGACAGCAGGCGATAAATCTTACACTGTTGTTAAGAAGCAATACAAAGTTCCTGTGACCAAAAACT
upper sequence: GRMZM2G155837_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os04g52606.1 (Oryza sativa), 3'ss of exon 3
gttggttcttgt----tgatctgatcacctacattttggggtttgagcttatgagctggttaatattttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
||||||||||| | ||||| | ||| | || | ||| | ||| | | | ||| | ||||| | ||| |||||| || | |||| || ||||||||| |||| |||||||| ||||||||| |||| | ||||||||||||| ||| ||| | |||| |||||||| || | |||||
gttggttcttgcgtagctagctgataagctataccttttgatttaa-cttgtaatcaagttgagattttct-----tttgtcttgtttttgttgtagGGTGAACGTAAGGAGCAGAATTTTGACATCAGGAAGGCAGCAGGTGATAAATCTTACACTGTTGTTAAGAGGTCATATAAAGTTCCTGTGACCAAAAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgagcttatgagctggttaatattttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
ggttaat putative branch site (score: 4)
ttttttcttgtgttc putative PPT
ttaatattttgtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggttcttgttgatctgatcacctacattttggggtttgagcttatgagctggttaatattttgtattattttttcttgtgttcggcacagGGCGAGCGTAAGGAGAAGAACTTTGACATAAGGAAGGCATCAGGGGGGAAATCTTACACTGCTGTCGAGAAGCAGTATATTGTTCCTGTCACTAGAAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC