Sequence
atgc intronic sequence ATGC exonic sequencegtataacatctgcttgtgtgaaaaaaaaacttgtccttgagacatgctacattacttgattctgtttcctgtgattcattgatttttagGTTGAGATGGGTGGTTGCAAGGCTTAAATCATGACCTTCATCGTCGAGCCATTTGTGCCACATGATCAAGAGTACTACCTTTCGATTATTTCAGAGAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G072216_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g47330.1 (Oryza sativa), 3'ss of exon 2
---gtataacat--ctgcttgtgtgaaaaaaaaacttgtccttgagacatgctacattacttgattctgtttcctgtgattcattgatttttagGTTGAGATGGGTGGTTGCAAGGCTTAAATCATGACCTTCATCGTCGAGCCATTTGTGCCACATGATCAAGAGTACTACCTTTCGATTATTTCAGAGAGGT
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gtagttcaattttgctatcgcctttaaaatctgacttattctctgttc--gcttgataaattaagt-tgttctgtcctatt-gtggctattcagGTCGAGATGGGTGGCTGCAAGGCTCCAATCACCACCTTCATTGTGGAGCCATTTGTACCCCATGATCAAGAATACTACCTTTCTATTGTCTCGGAGAGGC
upper sequence: GRMZM2G072216_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv14s0060g00550.t01 (Vitis vinifera), 3'ss of exon 2
gtataacatctgcttgtg-tgaaaaaaaaacttgtccttgagacatgctacattacttgattctgtttcc-tgtga-ttcattgatttttagGTTGAGATGGGTGGTTGCAAGGCTTAAATCATGACCTTCATCGTCGAGCCATTTGTGCCACATGATCAAGAGTACTACCTTTCGATTATTTCAGAGAGGT
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---------------gtgatgaatgcatcaaatttaccagaattttggcac-taattcatttctgttaacatgtgaattggattctctttagGTTGAGATGGGTGGTTGCAAGGCACCAATAACCACTTTTATTGTTGAACCGTTTGTTCCCCATGACCAAGAGTATTACCTTTCGATTGTATCTGATAGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttgagacatgctacattacttgattctgtttcctgtgattcattgatttttagGTTGAGATGGGTGGTTGCAAGGCTTAAATCATGACCTTCATCGTCGAGCCATTTGTGCCACATGATCAAGAGTACTACCTTTCGATTATTTCAGAGAGGT
cattgat putative branch site (score: 4)
ttttt CT-rich tract
attcattgattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataacatctgcttgtgtgaaaaaaaaacttgtccttgagacatgctacattacttgattctgtttcctgtgattcattgatttttagGTTGAGATGGGTGGTTGCAAGGCTTAAATCATGACCTTCATCGTCGAGCCATTTGTGCCACATGATCAAGAGTACTACCTTTCGATTATTTCAGAGAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG