Sequence
atgc intronic sequence ATGC exonic sequencegtgagaaaaatcccccttgttactattatctaactatgagcttcccttgatcattgattcatttggcataggatcttatattcttagattttgatatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 2
gtgagaaaaatcccccttgttactattatctaactatgagcttcccttgatcattgattcatttggcataggatcttatattcttagattttgatatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
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---------------------------------------gtattgtttgtgctttgctttttgagtgatttgtgtttgtgtgattttcattttgttgaatgtctgcct---ttttgttttgcagTGATGGGAAGCTTGAGATTGTGGTTCCGTCTTTTGTTCACTACCTTGAGGTTCTAGAAGGTGCTGATGGGGACAAAATGCCAG
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G27250.1 (Glycine max), 3'ss of exon 2
gtgagaaaaatcccccttgttactattatctaactatgagcttcccttgatcattgattcatttggcataggatcttatattcttagattttgatatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
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------------------------gtaagttgtttatgtgctttgctttttgagtgatttgtgt---------ttgtgtaattttc-attttgttg-aatgtctgcct---ttttgttttgcagTGATGGGAAGCTTGAGATTGTGGTTCCGTCTTTTGTTCACTACCTTGAGGTTCTAGAAGGTGCTGATGGGGACAAAATGCCAG
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G09090.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------------gtgagaaaaatcccccttgttactattatctaactatgag------cttcccttgatcattgatt----catttggcataggatcttatattcttagattttg-atatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
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gtttggtttattatctttcccaccaatgtttttatgttgattctgtgttaaaatcttttactcacaatcagatgttttctctctcgaatttgggttaaggcatcatgattaatgagtgctggttccatactttgtgcttaaagccggattttgtttt-tgttacagTGATGGAAAGCTTGACATTGTTGTTCCATCTTTTGTTCATTACCTCGAAGTTCTTGAAGGAGCTGATGGAGACAAGATGCCAG
upper sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S334_25V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgagaaaaatcccccttgttactattatctaactatgagcttcccttgatcattgattcatttg-gcataggatcttatattcttagattttgatatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
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-------------------------ataccttgctcccatcttgcgccatctactccctcgcccccaaataaaaccaattcttcaaaaaagctgactactgcattttgtcgaacgcttattgcagAGATGGCAAACTGGAAATTGTTGTTCCTTCCTTTGTACATTACCTGGAAGTTTTAGAAGGCTCTGATGGAGAAAAGCTGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggatcttatattcttagattttgatatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
ttttgat putative branch site (score: 4)
cctttctatgttttgt putative PPT
ttatattcttagattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaaaaatcccccttgttactattatctaactatgagcttcccttgatcattgattcatttggcataggatcttatattcttagattttgatatggggcctttctatgttttgtttctcagTGATGGAAAGCTTGATATAGTGGTTCCTTCTTTTGTTCATTATCTGGAGGTCTTAGAAGGTTCTGATGGAGATAAAATGCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT