Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttgtcttgtataaccgttcttggcatgcagtgaatttccatatggaatcctctgattgccttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G21510.2 (Glycine max), 3'ss of exon 3
----------------------gtaagtttgtcttgtataaccgttcttggcatgca-gtgaatttccatatggaatcctctgattgccttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
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cataaccatctatgctgtcactgcaaagctattttct-tccccgtagttattatttgtacgaaaattcatgaagtaaccagagattg--ttaaaatgttacagCTTTTACATTATTCGTTGGGGTCACATTCCCTTTCTTTGGTGATCTGCTTGGGTTCTTTGGTGGATTTGGTTTTGCTCCTACTTCATACTTT
upper sequence: Vv01s0011g03180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G34790.1 (Glycine max), 3'ss of exon 5
----------------------------gtaagtttgtcttgtataaccgttcttggcat-gcagtgaatttccatatggaatcctctgattgccttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
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gtgggagacatgtcaaaactcaactaatacatgctatcactgcaaaacatttttctgtttagttgtgaaatgcagagtga----cttcaatttgttaaaaatgtttcagCTTTTACATTATTTGTTGGGGTCACTTTTCCTTTCTTTGGCGATCTTTTGGGGTTCTTTGGTGGGTTTGGTTTTGCTCCCACTTCATATTTC
upper sequence: Vv01s0011g03180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G10870.1 (Glycine max), 3'ss of exon 6
----------gtaagtttgtcttgtataaccgttcttggcatgcagtgaatttccatatggaa--tcctctgattgcc--------ttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
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tcataaccatccatgcagtcactgcaaagctattttttccccatagttgttatttgtatgaaaagtcttgaagtaaccagagattgttaaaatgttgcagCTTTTACATTATTATTTGGGGTCACATTTCCTTTCTTTGGTGATCTTCTTGGGTTGTTTGGTGGATTTGGTTTTGCTCCTACTGCATTCTTT
upper sequence: Vv01s0011g03180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G25530.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------gtaagtttgtcttgtat--------aaccgttcttggcatgcagtgaatttccatatggaatcctctgattgcc-ttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
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gtaagactttaatttactgatgttcctcatgcatgagatagtaaatatttgtctaattaagtaaaagctaattataaattgagtatttgcgattggaaattttcagCATTTACATTGTTCATTGGAGTGAGTTTCCCCTTCTTTGGAGACCTTCTAGGCTTCTTTGGAGGATTTGGTTTTGCACCTACTTCTTTCTTC
upper sequence: Vv01s0011g03180.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S5_176V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------------------------gtaagtttgtcttgtataaccgttcttggcatgcagtgaatttccatatggaatcctctgattgccttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
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gtgagtgacccacgcagatctggcgtctttttgataattactcgctgaccatctccgtagccaagattgatgaccttaaatctcccctcgtgcaaacatgagatgtaatgctcatcgttaa-tggtgcagCTTTTACTGCGTTTGTCGGTATGACGTTCCCCTTCTTTGGAGCTCTTCTTGGTTTCTTCGGAGGATTCGCCTTCGCTCCTACAACATACTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggcatgcagtgaatttccatatggaatcctctgattgccttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
ctctgat putative branch site (score: 4)
ttgaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttgtcttgtataaccgttcttggcatgcagtgaatttccatatggaatcctctgattgccttgaaattttgcagCTTTTACACTCTTCGTCGGAGTCACCTTCCCTTTCTTTGGAGATCTTCTTGGTTTCTTTGGAGGATTCGGTTTTGCTCCCACTTCATATTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT