Sequence
atgc intronic sequence ATGC exonic sequence...ggtttccattaaaaaagtatggaatttggaatttggaattttaaaaaaatgtttttacatctaattgttggagttctcttggtgattgtatttgtcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os07g06820.1 (Oryza sativa), 3'ss of exon 6
-------------------------------------------ggtttccattaa--aaaagtatggaatttggaatttgg--aattttaaaaaaatgtttttacatctaattgttggagttctcttggtgattgtatttg------tcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
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gtaaaacttgtgttttaacatttgtcaattggatgcttgtcaacttctctatctataaaaagggtaaaatttggatgcttgttaacatttgtcaattctatggaattatcaataattcagtacatcttgtaattcgatttggttttccttcagGAAAAGGAGGTTGGGCTGCTCCTCGTCTCAAGGATGCTGCTTTATCTGATGATAAGTTGCGTGAAAGTTATTTTGAG
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 6
ggtttccattaaaaaagtatggaatttggaatttggaattttaaaaaaatgtttttacatcta-attgttggagttctcttggtgattgtatttgtcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG-
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--ttttaggatcaaatttattatcatcagtcatagaaatttcaattttttgctgctgcatatataatttcaaagttatgttgtttttgttgtttctcacaggAAAATCTGGTTGGGCTGCCCCTCGTCTTAAAGATGCAGCTTTATCTTTAGACAAGTTGCGGGAAGGCTATGTTGAGG
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 6
-ggtttccattaaaaaagtatgg-aatttggaatttggaattttaaaaaaatgtttttacatctaattgttggagttctcttggtgattgtatttgtcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
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ctgcatatatcatttcattctggtaatgcagactattgtttaagtagaaattacaaatacaatt--ttattgaagttctgttgtttttgttgtttctcacagGAAAATCTGGTTGGGCTGCGCCTCGTCTTAAAGATGCAGCTTTATCTTTAGACAAGTTGCGGGAAGGCTATGTTGAG
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------------------------------------------ggtttccattaaaaaagtatggaatttggaatttggaattttaaaaaaatgtttttacatctaattgttggagttctcttggtg-attgtatttgt-----cacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
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gttcgctctaatgcattatctgctgttttaatcactgattccaggcatctcttctccattcactctaattcatctgtatatttgactgaaacagagaaatgatgaattaaagggttttcagttacctaatccaatttactaagaatgttttatttatataattgcagGGAGGGATGGTTGGGCTGCACCGCGTCTCAAGGATGCTGCATTATCTCTAGACAAGTTGCGCGAGTGCTACCTAGAG
upper sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------------------ggtttccattaaaaa----agtatgga--atttggaatttggaattttaaaaaaatgtttttacatctaattgttggagttctcttggtgattgtatttgtcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
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gttcgctcttatgcattatcttctgttttaatcactcatttccacgcaacactctactctgattcattagcatatttcattgatgaagtaacgatttttcagctaccaaagatagttttatctat--ttataatt--tgcagGGAGGGATGGTTGGGCTGCACCGCGTCTCAAGGATGCCGCATTGTCTCTGGACAAGTTGCGCGAGTGTTACTTAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatgtttttacatctaattgttggagttctcttggtgattgtatttgtcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
atctaat putative branch site (score: 3)
tttttacatctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtttccattaaaaaagtatggaatttggaatttggaattttaaaaaaatgtttttacatctaattgttggagttctcttggtgattgtatttgtcacagGAAAGGCAGGTTGGGCTGCACCTCGTCTTAAGGATGCTGCTTTATCTCTTGACAAATTGCGTGAAGGTTATGTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgttgg