Sequence
atgc intronic sequence ATGC exonic sequence...catgggtatgcagggtgcacaaatataaaaggaaaataaacattcatgcctgacttgttaatgttggtgctttaccacctgttcttttgtttttctatagTATTATTTGAAGACTGGGACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCAAGATGGATCTGTGCAATCTGTTATATTAAACAACAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G086994_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g15460.3 (Oryza sativa), 3'ss of exon 2
catgggtatgcagggtgcacaaatataaaaggaaaataaacattcatgcc-tgacttgtta-atgttggtgctttaccacctgttcttttgtttttctatagTATTATTTGAAGACTGGGACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCAAGATGGATCTGTGCAATCTGTTATATTAAACAACAATG
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--caaataataattggctgagattgttaagcacataacaattttaatgtcatgtcatatgacatgtaaatgttggtcctaattctttttccttgttttacagTATTACATGAAGACTGGGACTTGCAAATTTGGTACCAATTGCAAATATCACCATCCTAAGCAAGATGGAGCTGTGCTACCTGTTATGTTAAACAACAGTG
upper sequence: GRMZM2G086994_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------catgggtatgcagggtgcacaaatataaaaggaaaataaacattcatgcct-gacttgttaatgt-tggtgctttaccacct-gttcttttgtttttctatagTATTATTTGAAGACTGGGACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCAAGATGG---ATCTGTGCAATCTGTTATATTAAACAACAATG
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gtatgttgttgtttgttgactgaatataaaatactggatggggatggaatgcttgatctctaccaatatagattccttggatctgctagaattgttttcatctacttgtattatgcattattattaaggcttattatcctatacttattaatcgtatagttattccttaaatatgcagTTTTATTTGAAGACTGGGACCTGTAAATTTGGTGCGTCCTGCAGGTTTCACCATCCAAGAAATGGTGGTGGATCCATGAGCCATGTGTCACTAAATATTT---
upper sequence: GRMZM2G086994_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S102_155V6.1 (Physcomitrella patens), 3'ss of exon 2
catgggtatgcagg-gtgcacaaatataaaaggaaaataaacattcatgcctgact-tgttaatgttggtgctttaccacctgt-tcttttgtttttctatagTATTATTTGAAGACTGGGACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCAAGATG---GATCTGTGCAATCTGTTATATTAAACAACAATG
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---tgatatgcaggagtgggtgtggtgtccggggtggtgggagttgggaactagcagcggtggtgctgagggcaggggtggggtgtgtggcgtgagtgtgcagTATTATTTGAAGACGGGGACTTGCAAATTTGGAGCCACGTGCAAGTACCATCATCCGAGGGAGAAGGCGGGATCCACAGGGCGCGTACATTTGAACGTGC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcctgacttgttaatgttggtgctttaccacctgttcttttgtttttctatagTATTATTTGAAGACTGGGACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCAAGATGGATCTGTGCAATCTGTTATATTAAACAACAATG
tgttaat putative branch site (score: 3)
ctttaccacctgttct putative PPT
ttttgtttttctata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgggtatgcagggtgcacaaatataaaaggaaaataaacattcatgcctgacttgttaatgttggtgctttaccacctgttcttttgtttttctatagTATTATTTGAAGACTGGGACTTGTAAATTTGGTTCCAATTGCAAATATCACCATCCTAAGCAAGATGGATCTGTGCAATCTGTTATATTAAACAACAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA