Sequence
atgc intronic sequence ATGC exonic sequence...tctgctgatatttttatctcattttattaacttaggcctctaatgcctttctaattacaatatattttagtcacagacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g54500.1 (Oryza sativa), 3'ss of exon 6
tctgctgatatttttatctcattttattaacttaggcctcta-atgcctttctaa-ttacaatatattttagtcaca-gacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
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--ttctgtatctcctagctttttattcctatttaaataccaatatgcgggcatgacttgctatctattt-agttatatgacatgtttgttgcacttgtcttagGTATGAGCTTCTCTTTTTCCCAAGATATCACCTTGATTATAGCTCATTACTTTACCGGAAATCACTTCTTGGTCGACCAATTGTCATGGATGTCTTCCAG
upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 7
-----tctgctgatatttttatctcattttattaacttaggcctctaatgcctttctaattacaatatattttagtcacagacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
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taggtctcattaaaattatagtttctgactttctgtagcattctgcactgccatttcgttctacatccat---ggtctct--taggtctccttgttttatctcagGTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCATTGCTTGCTAAACCAATGGTGATGGATGTGTACCAA
upper sequence: GRMZM2G052750_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA09G39270.1 (Glycine max), 3'ss of exon 7
tctgctgatatttttatctcattttattaacttaggcctc-taatgcctttctaattacaatatattttagtca-cagacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
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-taggtgtcatcaaaattatagtttctgactttctgtagcattatgcaccaccattt-cgatctacatctgtggtctcttaggtctccttgttttatctcagTTATGAATTGCTCTTTTACCCAAGATATCACCTTGATCAAAGCTCATTACTCTGTCGAAAACCGTTGCTTGCTAAACCAATGGTGATGGATGTGTACCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctttctaattacaatatattttagtcacagacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
ttctaat putative branch site (score: 2)
tcattctttt putative PPT
taattacaatatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgctgatatttttatctcattttattaacttaggcctctaatgcctttctaattacaatatattttagtcacagacatgtatcattcttttggctcagGTACGAGCTTCTCTTTTTCCCAAGATATCATCTTGATTATAGCTCTTTACTCTACCGAAAACCACTGCTTGGAAGGCCAATTGTCATGGATGTTTTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA