Sequence
atgc intronic sequence ATGC exonic sequence...tgacaatcaacagtccctgctgcctacagtagtgttatttgtctatattttgctgaaatttgcgaatttaacagtacatttttgtgtttggatattgcagAAGATGCTTAAATATGACCCATCTGAAAGAATCTCAGCTAAAGCAGCTTTGGATCATCCCTACTTCGACAGCCTTGACAAATCTCAATTCTGAAGTTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G02400.1 (Glycine max), 3'ss of exon 3
tgacaatcaacagtccctgctgcctacagtagtgttatttgtctatattttgctgaaatttgcgaatttaacagtacatttttgtgtttggata---------ttgcagAAGATGCTTAAATATGACCCATCTGAAAGAATCTCAGCTAAAGCAGCTTTGGATCATCCCTACTTCGACAGCCTTGACAAATCTCAATTCTGAAGTTGTT
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--------gctggagcttgttacataatataataccatacttcaa-ataacttccatacatgctacattcactttccccgttttcaacaaaaaaaattttcacctgcagAAAATGCTCAAGTATAATCCTTCTGAGAGAATATCTGCTAAGGCAGCACTTGATCATCCATACTTTGACAGTCTTGACAAATCTCAATTTTAGTTGAGCC
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G38620.2 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------tgacaatcaac---agtccctgctgcctacagtagtgttatttgtctat--attttgctgaaatttg--cgaatttaacagtacatttttgtg----tttggata-ttgcagAAGATGCTTAAATATGACCCATCTGAAAGAATCTCAGCTAAAGCAGCTTTGGATCATCCCTACTTCGACAGCCTTGACAAATCTCAATTCTGAAGTTGTT
|| || | || || ||| ||| | | | || || || || || || || | | | || | || || || || |||| | | |||||| | ||| | || || | ||| | |||||||| ||||| ||||||||| | |||||||||||||| |||||||||||||||||||| |||||| |
gtaatgctcttttctaaaatatgaccattgttggagaagtggcctaagattctcttgcatact-tgatctctttagtagattctttctgttggggttcgttcctagttgatgataatttgttttgaacctttgaacaattgcagCAAATGTTGAAGTACAATCCAGCAGAAAGAATTTCAGCAAAAGCAGCTCTCGATCATCCCTACTTTGACAGCCTTGACAAATCTCAGTTCTGACCTCTGC
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G54180.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------tgacaatcaacagtccctgctgcctacagtagtgttatt-tgtctatattttgctgaa--atttg--cgaatttaacagtacatttttgtgtttggata-ttgcagAAGATGCTTAAATATGACCCATCTGAAAGAATCTCAGCTAAAGCAGCTTTGGATCATCCCTACTTCGACAGCCTTGACAAATCTCAATTCTGAAGTTGTT
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gtaaataactccctgatgaccatagctttgttgcaaagttgctctaatattgttacctcttgcttctgcttccctctttttttcctaagctgaattgcttggttaaatctttctgattgagcttatgtttgtacaattgcagAAAATGCTCAAGTACAATCCAGCCGAAAGAATTTCAGCAAAAACAGCACTTGATCACCCATATTTTGACAGCCTTGACAAGTCTCAGTTCTGAAGTTCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttgctgaaatttgcgaatttaacagtacatttttgtgtttggatattgcagAAGATGCTTAAATATGACCCATCTGAAAGAATCTCAGCTAAAGCAGCTTTGGATCATCCCTACTTCGACAGCCTTGACAAATCTCAATTCTGAAGTTGTT
atttaac putative branch site (score: 3)
aatttaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgacaatcaacagtccctgctgcctacagtagtgttatttgtctatattttgctgaaatttgcgaatttaacagtacatttttgtgtttggatattgcagAAGATGCTTAAATATGACCCATCTGAAAGAATCTCAGCTAAAGCAGCTTTGGATCATCCCTACTTCGACAGCCTTGACAAATCTCAATTCTGAAGTTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- -caatcaa
- - - - - - - ccctgct
- - - - - - - - - - -gcctaca