Sequence
atgc intronic sequence ATGC exonic sequencegtaattctttctttatctgtatctattgtttggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 7
--------------gtaattctttcttt--atctgtatctattgtttggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttatgtgattgacccttgttt-tacttggtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 9
gtaattctttctttatctgtatctattgtttggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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-------------------------gtgtccaatttatgtgattgacccatg------------ttttactttgtatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCACTTAGGG
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 9
-------------------------------------------------------------------------------gtaattctttctt-tatctgtatctattgtttggtctgtttgattttctcata--atgggttg---ttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 7
---------gtaattctttctt-tatctgtatctattgtttggtctg---tttgattttctcataatgggt--tgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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gacacatgaatgattttgtattacaattctaactgttttatgttctagattgtgatcatgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCACATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
-----------gtaattctttctttatctgtatctattgtttggtctgtttgattttctcataatgg--gttgttaattgtgtct---cttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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gtagcttctttggatgattttatttgcttgatttctttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------gtaattctttctttatctgtatctattgtttggtctgtttgattttctcat-aatgggttgtta-attgtgtc-tcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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gtaaattcctcaatatttttgctgcttcagtttctttcatgttgaaaaatgatttttaatattgacatcctttcatgttctgttgtcacactttcatagTCAAGAGTGGTTCAATGTACGGAAGGAGAAAGGTCATATCATATATTCTATCAACTTTGTGCTGGGGCTTCACCTACACTTAGAG
upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S104_215V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------------------------------------------------gtaattctttctttatctgtatctattgtttggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
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gtaagcactttcttacagtacttctatggttggtccaaaattgaattctatgattttgtgggcaatttttttgtgtgtatttttggagatagggggtgggatgttgacatcaaacgaaaccgtttatcatttcttatcttttatccatgattgctaagtggtgcaacttctttcgtttgtagTCGAGAGTCGTACAGCAAGCAGAAGGTGAAAGGTCATATCACGTTTTTTATCAACTGTGTGCTGGAGCTGATGAATCTTTACGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
tgttaat putative branch site (score: 3)
tgtctctttt putative PPT
tttgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattctttctttatctgtatctattgtttggtctgtttgattttctcataatgggttgttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC