Sequence
atgc intronic sequence ATGC exonic sequencegtagaatcataacactgaattatccgcgtttgacctgtgtctatttttgagtttctgggttgtaaccaattgtcttcttcgattacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062142_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g47590.1 (Oryza sativa), 3'ss of exon 3
gtagaatcataacactgaattatccgcgtttgacctgtgtctatttttgagtttctgggttgtaaccaattgtcttcttcgattacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
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------gtagatcatttattgcaccctaaggaaccaccatgtaatcttgctttagtatattatgactaattttcaacttttattgttatgaagGTTGTCTATGTTGGAGACGGGAACAATATTGTCCACTCATGGCTTCGATTGGCTGCTTTATTTCCTTTACATTTTGTATGTGCCTGTCCTAAGGGCTTCG
upper sequence: GRMZM2G062142_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
gtagaatcataacactgaattatccgcgtttgacctgtgtctatttttg-----agtttctgggttgtaacca----attgtcttcttcgat-tacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
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gtcaggttatgttgcttgtcttgaaaagtttgcttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
upper sequence: GRMZM2G062142_T01 (Zea mays), 3'ss of exon 5
lower sequence: AT1G75330.1 (Arabidopsis thaliana), 3'ss of exon 3
--------gtagaatcataacactgaattatccgcgtttgacctgtgtctatttttgagtttctgggttgtaaccaattgtcttcttcgattacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
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aagcacagcttgtattatgat-ctcattgttctatgttttgcatacatgtaaggtcataaaaaaatgttatctatactaacaccaattcaacaaacttaagGTTGTGTATGTTGGAGATGGGAACAACATGGTTCACTCTTGGTTAGAATTGGCATCCGTTATTCCATTCCACTTTGTCTGCGCTTGCCCAAAAGGGTATG
upper sequence: GRMZM2G062142_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv18s0001g12780.t01 (Vitis vinifera), 3'ss of exon 3
------gtagaatcat--aacactgaattatccgcgtttgacctgt--gtctatttttga---gtttctgggttgtaa--ccaatt--gtcttcttcgattacgttgt--------agGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
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gtccgactatttttatctgggtcaagactctatgtatttgaccatttagcatctccttgatcagatattcagttgaaattctagtctaatctgatatgatgaccatgtgaaaaaccagGTTGTCTATGTTGGGGATGGGAACAACATTGTGCATTCCTGGCTGCTGCTGGCTGCAGTTGTTCCCTTCCATTTTGTCTGTGCCTGTCCTAAAGGTTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctatttttgagtttctgggttgtaaccaattgtcttcttcgattacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
ttgtaac putative branch site (score: 2)
tttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaatcataacactgaattatccgcgtttgacctgtgtctatttttgagtttctgggttgtaaccaattgtcttcttcgattacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT