Sequence
atgc intronic sequence ATGC exonic sequence...atggacttctgccttgcatgtatctgccttcgtttattgttcatggatttttttttgcctatgaatgttgatccttactgacttcctgaatgttactcagCTTGCTTGTGGAAAAAATGGTTATGATTACAAATCTGTTAAAAGATGGACCTCCCAAAGGAAGTTGGGATATGAACTCATTGAATGCGATAAAGTAATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G849959_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g22400.1 (Oryza sativa), 3'ss of exon 4
atggacttctgccttgcatgtatctgccttcgtttattgttcatggatttttttttgccta-tgaatgttgatccttactgacttcctgaat-gtta---------ctcagCTTGCTTGTGGAAAAAATGGTTATGATTACAAATCTGTTAAAAGATGGACCTCCCAAAGGAAGTTGGGATATGAACTCATTGAATGCGATAAAGTAATGT
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-----------aattttaccatttcattttcatttgtgaatgctgaattgctgatcaccaagtaaatgctaatcttcattgactccctgaattgttggtcgtttggttcagCTTGCTTGCGGAAAAAATGGCTATGACTACAAATCTGTTAAAAGATGGACTACCCGCAGGAGGTTGGGTTATGAGCTTATTGAGTGTGATAAA-------
upper sequence: GRMZM5G849959_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv05s0020g01220.t01 (Vitis vinifera), 3'ss of exon 4
atggacttctgccttgcatgtatctgccttcgtttattgttcatg-gatttttttttgcctatgaatgttgatccttactgacttcctgaatgttactc--agCTTGCTTGTGGAAAAAATGGTTATGATTACAAATCTGTTAAAAGATGGACCTCCCAAAGGAAGTTGGGATATGAACTCATTGAATGCGATAAAGTAATGT
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--acatttacttatctcaggtttctgt-ttggtctttggtttctataatttaagtttggtggtgttgatatcatgatcctcttttcctgaatgatgttcccagTTAATAAGTGGGAGGAATTCCTATGACTATAAATCTGTTAGAAGATGGACTACGCAAAGGAAGTTGGGATACAGCCTTAGTGAATGTGACAAA------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttttttttgcctatgaatgttgatccttactgacttcctgaatgttactcagCTTGCTTGTGGAAAAAATGGTTATGATTACAAATCTGTTAAAAGATGGACCTCCCAAAGGAAGTTGGGATATGAACTCATTGAATGCGATAAAGTAATGT
tactgac putative branch site (score: 1)
tttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggacttctgccttgcatgtatctgccttcgtttattgttcatggatttttttttgcctatgaatgttgatccttactgacttcctgaatgttactcagCTTGCTTGTGGAAAAAATGGTTATGATTACAAATCTGTTAAAAGATGGACCTCCCAAAGGAAGTTGGGATATGAACTCATTGAATGCGATAAAGTAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA