Sequence
atgc intronic sequence ATGC exonic sequencegtgagctcttcttcttctttctctacagtgaaatattgttgaattgttttcatgatgctgatcgaatcgtttagacagGTTGGAGAACGTACTGCAGGCCAGACGACAAGTCCGGTGGCCACGGAGTTGGCTGGAGCCCCATCATGTGCTGTGGCTGTGCGGCTGTGCTGGTGGGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G425136_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g08830.2 (Oryza sativa), 3'ss of exon 1
-------------------------------gtgagctcttcttcttctttctctacagtgaaatattgttgaattgttttcatgatgctgatcgaatcgtttagacagGTTGGAGAACGTACTGCAGGCCAGACGACAAGTCCGGTGGCCACGGAGTTGGCTGGAGCCCCATCATGTGCTGTGGCTGTGCGGCT-GTGCTGGTGGGGAG
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tgcagtagcttccattttttgtcatataaggatcatctttcaggcatgctatctgaaaaaaaggaactgctggattgttttcatgatatagtttg-----ttcagACAGGTTGGAGAACATACCGTAGGCCAGACGACAAGTCCGGTGGACATGGAGTTGGATGGAGCCCAATCATTCCCTACAGCTTCAAAGTTCGTGATGGCT-----
upper sequence: GRMZM2G425136_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g08830.1 (Oryza sativa), 3'ss of exon 1
---------------------------gtgagctcttcttcttctttctctacagtgaaatattgttgaattgttttcatgatgctgatcgaatcgtttagacagGTTGGAGAACGTACTGCAGGCCAGACGACAAGTCCGGTGGCCACGGAGTTGGCTGGAGCCCCATCATGTGCTGTGGCTGTGCGGCT-GTGCTGGTGGGGAG
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gtagcttccattttttgtcatataaggatcatctttcaggcatgctatctgaaaaaaaggaactgctggattgttttcatgatatagtttg-----ttcagacagGTTGGAGAACATACCGTAGGCCAGACGACAAGTCCGGTGGACATGGAGTTGGATGGAGCCCAATCATTCCCTACAGCTTCAAAGTTCGTGATGGCTGGGA- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacagtgaaatattgttgaattgttttcatgatgctgatcgaatcgtttagacagGTTGGAGAACGTACTGCAGGCCAGACGACAAGTCCGGTGGCCACGGAGTTGGCTGGAGCCCCATCATGTGCTGTGGCTGTGCGGCTGTGCTGGTGGGGAG
tgctgat putative branch site (score: 3)
aaatattgttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctcttcttcttctttctctacagtgaaatattgttgaattgttttcatgatgctgatcgaatcgtttagacagGTTGGAGAACGTACTGCAGGCCAGACGACAAGTCCGGTGGCCACGGAGTTGGCTGGAGCCCCATCATGTGCTGTGGCTGTGCGGCTGTGCTGGTGGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG