Sequence
atgc intronic sequence ATGC exonic sequence...tatatccttctactttgatgttgcttggacatgctatcatcttcaatttatagtttgatgagtttcatttatattgtttggttattacttccttctacagGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g46894.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------------------------tatatccttctactttgatgttgcttggacatgctatcatcttcaatttatagtttgatgagtttcatttatattgtttggttattacttccttctacagGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
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gcaagctatttttcttttgtagagcatcctatgcagaaaatcttttccgctgttgccatcccaaccttcctctcttatttgtgtttgtgatgcttgtatcattgctg---attttggcctatttcctcataattttgttgttgctgtgacaattta--gGATGTGGAAGCAACAATTCATTGTGCAGAGTGGCTTTCAATGGTTGGAGGATCTAGCACAGGAGACCAAAGAATCAG
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G60920.1 (Arabidopsis thaliana), 3'ss of exon 8
-tatatccttctactttgatg-ttgcttggacatgctatcatcttcaatttat---agtttgatgagtttcatttatattgtttggt-tat-tacttccttctacagGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
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gtaaatttgtttgtttcagcggtctaccagattaattccctttcacgttttttccaagctcatttgtgtttatttatatttttcgctacatctgattccttttacagGATATTGAGGCTACAATTCATTGTGCAGAGTGGCTTACTTTTGTTGGTGGGTCTAGCACTGGGGAGAAACGAATTAG
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G45540.2 (Arabidopsis thaliana), 3'ss of exon 8
tatatccttctactttga-tgt-tgcttggacatgctatcatcttcaatttatagtttgatgagtttcatttat-attgtttg-gttat-tacttccttctac-agGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
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-gtaaagttttgtcttaactgtctattgggttacactttagccctc---ttcgagcaacattgttttcaattattattacttgcatcatctatttccttctcccagGATATCGAGGCTACAATTCATTGTGCAGAGTGGCTTTCTATCGTTGGTGGTTCCAGCACTGGAGAGCAAAGAATTAG
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ32770 (Selaginella moellendorffii), 3'ss of exon 6
tatatccttctactttgatgttgcttggacatgctatcatcttcaatttatagtttgatgagtttcatttatattgtttggttattacttccttctacagGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
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----------------------------------------------gtaactgtctctttcatctagt--gttttgtttaac-atgtattcattttgtagGATATTGAAGCTGCTATTCATTGTGCAGAATGGCTTGCAATATTTGGCGGTCCAAGTATGGGAGAGCAGCGGTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatagtttgatgagtttcatttatattgtttggttattacttccttctacagGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
gtttgat putative branch site (score: 5)
ttattacttccttct putative PPT
atttatattgtttggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatccttctactttgatgttgcttggacatgctatcatcttcaatttatagtttgatgagtttcatttatattgtttggttattacttccttctacagGATATTGAAGCTACAATTCATTGTGCAGAATGGCTGTCCATGGTGGGGGGCTCTAGCACAGGAGACCAACGCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - tccttct
- - - - - - - - - - -tgcttgg
- - - - - - - - - - - - - - acatgct
- - - - - - - - - - - - - - - - - - -catcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgg