Sequence
atgc intronic sequence ATGC exonic sequence...atctgctttgactcctatctccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcattaatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os09g21510.1 (Oryza sativa), 3'ss of exon 7
--atctgctttgactcctatctccaatgaaataaaaagttattctttctgctccttatcttttgtt-ctttggagctcattaatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
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aagtaaaacattattgttattcttaa-aagctatttcagtatcatgttatttttctatttgttcttactttttagctgatccgtactatc-catcctct-cagCTCTGCAGACATCTGGAGTGTGGGATGCACAGTTATTGAAATGGCTACTGGTAAACCACCATGGAGCCAGCAGTACCAGGAG
upper sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G098828_T01 (Zea mays), 3'ss of exon 7
-atctgctttgactcctatctccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcattaatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
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aatgtactgtgatctgaaatagaaaactacttcagaatcgtgttgccttttttttttggtctaatttggcacacccgcccttactattccgttctct-cagTTCTGCAGATATATGGAGTGTAGGGTGCACAGTCATTGAAATGGCCACTGGCAAACCACCATGGAGCCAGCAGTATCAAGAA
upper sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G064613_T03 (Zea mays), 3'ss of exon 7
atctgctttgactcctatct-ccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcatt---aatttggacatatatttta------cagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
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---------aattcagaacaacttacgatacattctgt-atttctgttgctcccaactttgttatcttttaaattaaatttgaattaatacttattatccattggtgcagTTCTGCTGATATCTGGAGTGTTGGTTGCACGGTAATTGAAATGGCAATAGGCAAACCCCCATGGAGCCACGAATATCAAGAG
upper sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G39670.1 (Glycine max), 3'ss of exon 7
------atctgctttgactcctatctccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcat-taatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATAT---CAGGAG
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tcataaacatgagtacgagcctattttctttcatttcgatcattagatttgat--tagagataagccattcttgggacaaaatctaacttgtg-----agttcttagCTCTACTGATATATGGAGTGTTGCATGCACTGTGATAGAGATGGCCACAGGAAAGCCTCCATGGAGTCAACAGTATCCCCAGGAG
upper sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G28090.1 (Glycine max), 3'ss of exon 7
-atctgctttgactcctatctccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcattaatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATAT---CAGGAG
|| |||| | || | ||| ||| | || | | | || | || | | | | ||||| ||||| |||||||||||||||||| ||| ||||| || |||||||| |||||||| ||||| ||||| || || ||| ||||||
cataaactttagcatgagcctattttcttcatttcagtcattagatttgattagagatataagccattcttgggacagaatctaactcgtg-attttttagCTCCACTGATATATGGAGTGTTGCATGCACTGTGATAGAGATGGCCACAGGAAAGCCTCCATGGAGTCAACAGTATCCCCAGGAG
upper sequence: Vv05s0020g02910.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G06030.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------------atctgctttgactcctatctccaatgaaataaaaagttattctttct----------------gctccttatcttttgttctttggagctca-----ttaatttggacata------tattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
||| | | || | | | |||| | |||| | | || | | || |||| || ||| || | || ||| ||| | || | | |||||||||||||||||||||||||| || ||||| |||||||||||||| || || ||||| |||||| |||| |||||| ||
gtaagtatttcaagaataccctaccagttatcttcttctccccatctccttagtttttgtaagataatagattatacatgctctgagtagtgggaatgggttctcatctatttttccatgtgtattgcaactttcattctgaccttcttctttaatctgaagCTCTGCTGATATATGGAGTGTTGGGTGCACTGTGATTGAGATGGCTACGGGGAAGCCTCCCTGGAGCGAGCAGTATCAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgctccttatcttttgttctttggagctcattaatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
cattaat putative branch site (score: 3)
attaatttggacatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctgctttgactcctatctccaatgaaataaaaagttattctttctgctccttatcttttgttctttggagctcattaatttggacatatattttacagCTCTGCTGATATATGGAGTGTTGGATGTACTGTTATTGAGATGGCTACAGGAAAACCTCCTTGGAGCCAGCAATATCAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- -tgctttg
- - - - - - - - -tctccaa
- - - - - - - - - - - - - aaataaa