Sequence
atgc intronic sequence ATGC exonic sequence...acactataccttacaacgtaagatgcgatgctgtattttatattcatatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttcagTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G150772_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g24260.1 (Oryza sativa), 3'ss of exon 5
acactataccttacaacgtaagatgcgatgctgtattttatattcatatgtttttttgtgattttccacccat-cggcttcttaatcgcacaatgtttcagTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT
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----------------------gtaagatgcagtactttattttcatatatttaagtatgtttagccttttgtatgactcttagattgtactttcctt-agTTGCTGTTGACAGTACAATTAAGCTTGTCGGAGCGGGTGCTTTTGGATTTCATCCAACCCTAGAGTGGATATTTATTGGTGATAGAGGTGGCACTCTCTT
upper sequence: GRMZM2G150772_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G39110.1 (Glycine max), 3'ss of exon 5
acactataccttacaacgtaagatgcgatgctgtattttata-ttcatatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttcagTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT------
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gtgagatgattcctgacata---ttctattcttgttgacatggtttatat-ttctcttgtaagtcac-atccttag---tgttatttatattttgtttcttattcagTTGACAATACTATAAAGCTTAATGGTGCTGGTGCATTTGCATTTCACCCAACTCTAGAATGGATATTTGTTGGTGATCGACGTGGTACACTACTGGCATG
upper sequence: GRMZM2G150772_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv00s0379g00020.t01 (Vitis vinifera), 3'ss of exon 4
acactataccttacaacgtaagatgcgatgctgtattttatattca-tatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttca-gTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT------
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------------gtgagatg-ggtgtaacactgtcttttttgttgaatattcgacagttttaatccccttttaacataaaatttctccttcttttctccttgttccagTTGATAATACCATTAAGCTCATTGGTGCTGGTGCCTTTGCTTTTCATCCAACTTTGGAGTGGATTTTTGTTGGTGATAGACGGGGTACACTACTTGCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttcagTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT
tcttaat putative branch site (score: 3)
tttttttgtgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acactataccttacaacgtaagatgcgatgctgtattttatattcatatgtttttttgtgattttccacccatcggcttcttaatcgcacaatgtttcagTTGCTGTTGACAGTACAATTAAGCTAATTGGAGCTGGTGCTTTTGGGTTTCACCCGACCCTAGAGTGGATATTTGTTGGTGATAGAGGTGGTACTCTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - gatgctg
- - - - - - - - - - - - - - - - - - - - - - - - tgttttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcttct