Sequence
atgc intronic sequence ATGC exonic sequencegttattcaggcgagtaaacctttcttttagtgaagattatgtctccaccaaaaatgctttcctcatgaaattttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g01470.1 (Oryza sativa), 3'ss of exon 5
-------------gttattcaggcgagtaaacctttctttta-gtgaagattatgtct-ccaccaaaaat-gctttcctcatgaaat---tttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
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taggcctagacttttcatcgatgagtttatgcttttacatcacatgtccattttatttaccatcgttagtcatattactaactagttgggttaattgcagGCTGCTGACACAGATATTTCAGCTTTAGTGGAAATTGAGAAAAATAGCCGGCATCGCTTTGAGTTTTTCATGGATCTTGTTGGGGATCAGCCTGTCTGTG
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G098039_T01 (Zea mays), 3'ss of exon 5
-------------------------------------------------gttattcaggcgagtaaacctttcttttagtgaagattatgtctccaccaaaaatgct-ttcctcatgaaattttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
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gtagtaaggctgtggcacaccagaatattttctgcatctatagtatgttctggttagggactatagtttcatctatttctcaatgctttattttgtttagcaccgttactaattaattggtttgcttgcagGCTGCTGACACAGATATTTCAGCTTTGGTTGAAATTGAGAAAAACAGCAGACATCGATTCGAGTTCTTCATGGATCTTGTTGGGGATCAGCCTATCTGTG
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G28490.1 (Glycine max), 3'ss of exon 5
gttattcaggcgagtaaacctttcttttagtgaagattatgtctccaccaaaaatgctttcctcatgaaatt--ttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
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---------gttagtaaccatatgttcgactagatgtgatttctacaatggtcgtattatcttactgagatgtattggtacagGCTGGTGACACAGATATTGCAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 5
gttattcaggcgagtaaacctttcttttagtgaagattatgtctccaccaaaaatgctttcctcatgaaatt--ttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
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---------gttagtaa-ccatagtttgactagatgcgatttttacaatgttagtattatcttactgagatgtattggtacagGCTGGTGACACCGATATTGAAGCCTTAGTTGAGATTGAGAAGAACAGCCCACACCGTTTTGAGTTTTTTATGGGACTTTCTGGAGATCAGCCTATTTGTG
upper sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G49810.1 (Arabidopsis thaliana), 3'ss of exon 5
gttattcaggcgagtaaacctttcttttagt---gaagattatgtctccaccaaaaatgctttcctcatgaaattttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
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---------gtaagaattttttctttaaagtcggaaagattatg-ctcctccacaatggcca--cttgacatgtgttttcacagGCTGCAGATACTGATATCTCAGCATTAGTTGAAATTGAGAGGAGCAGCCCTCATCGTTTTGAGTTCTTTATGGGACTTTCTGGAGACCAACCAATTTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagtgaagattatgtctccaccaaaaatgctttcctcatgaaattttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
ttttatt CT-rich tract
tcatgaaattttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattcaggcgagtaaacctttcttttagtgaagattatgtctccaccaaaaatgctttcctcatgaaattttattacagGCTGCTGATACAGATATTTCTGCTTTAGTCGAAATTGAGAAGAATAGTCCTCACCGCTTTGAGTTCTTCATGGGACTTGCTGGAGATCAGCCCATTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA