Sequence
atgc intronic sequence ATGC exonic sequencegttcagtgaggctttcttttctctgcttcaagctgtatttgaaattcttttatggcagattataaattgactgtaaaatcgcttctcttgcacatgtgccctttcaacagGTTGTCATTATGTTAGTTATTGATAGAGAAAATGATCGTGCACTCCTTAGTAGACAGTCTAGATTTGTACCCAGAATGTGGAGTTGCCTTGCTGGTTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g04910.1 (Oryza sativa), 3'ss of exon 2
gttcagtgaggctttcttttctctgcttcaagctgtatttgaaattcttttatggcagattataaattgactgtaaaatcgcttctcttgcacatgtgccctttcaacagGTTGTCATTATGTTAGTTATTGATAGAGAAAATGATCGTGCACTCCTTAGTAGACAGTCTAGATTTGTACCCAGAATGTGGAGTTGCCTTGCTGGTTTCA
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--------gtatgatttgtgctcaattcctgacc-tatcttgcagttggagatggcacctgttgaatttgacgttttgttatccctatttggtgtatt--------gcagGTTGTGATTATGTTGGTCATAGATAAGGAAAACGATCGTGCGCTCTTAAGCCGCCAGTCGAGATTTGTGCCTCGAATGTGGAGCTGTCTTGCTGGTTTTA
upper sequence: Vv11s0016g04950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G404897_T04 (Zea mays), 3'ss of exon 4
---------------------------------------------gttcagtgaggctttcttttctctgcttcaagctgtatttga--aattctt---ttatggcagattataaattgactgtaaaatcgcttctcttgcacatgtgccctttca-------acagGTTGTCATTATGTTAGTTATTGATAGAGAAAATGATCGTGCACTCCTTAGTAGACAGTCTAGATTTGTACCCAGAATGTGGAGTTGCCTTGCTGGTTTCA
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gtatcatttgtgctctcttcctcagttcccctcttttgtgcagtatctgtatatggattagatgtttacaagttgtgctatctgtcaccatttcttatcctgtagggatgctcaaactgacaacaaggtgtttagtgttcactcttttcttctgcacggtattgcagGTTGTGATCATGTTGGTCATTGATAAAGAAAATGATCGGGCACTCTTAAGCCGCCAGTCAAGATTTGTGCCTCGTATGTGGAGTTGTCTTGCTGGTTTCA
upper sequence: Vv11s0016g04950.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G20070.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcagtgaggctttcttttctctgcttcaagctgtatttgaaattcttttatggcagattataaattgactgtaaaatcgcttctcttgcacatgtgccctttcaacagGTTGTCATTATGTTAGTTATTGATAGAGAAAATGATCGTGCACTCCTTAGTAGACAGTCTAGATTTGTACCCAGAATGTGGAGTTGCCTTGCTGGTTTCA
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gtatattggagcttcttacattttgt---agatttcactaagagt------atggcc-attgtggaccttctggctgattggt---------catccgtctatt--acagGTGGTTATAATGTTAGTTATTGATCGAGAAAATGATCGCGCACTTTTAAGCAGGCAATCTAGATATGTACCGAGAATGTGGAGTTGTTTAGCTGGATTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagattataaattgactgtaaaatcgcttctcttgcacatgtgccctttcaacagGTTGTCATTATGTTAGTTATTGATAGAGAAAATGATCGTGCACTCCTTAGTAGACAGTCTAGATTTGTACCCAGAATGTGGAGTTGCCTTGCTGGTTTCA
aattgac putative branch site (score: 3)
tgccctttc putative PPT
tataaattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcagtgaggctttcttttctctgcttcaagctgtatttgaaattcttttatggcagattataaattgactgtaaaatcgcttctcttgcacatgtgccctttcaacagGTTGTCATTATGTTAGTTATTGATAGAGAAAATGATCGTGCACTCCTTAGTAGACAGTCTAGATTTGTACCCAGAATGTGGAGTTGCCTTGCTGGTTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG