Sequence
atgc intronic sequence ATGC exonic sequence...ttacatttgtatatatgttctgtatggctgcattacattgtggatataattcttctctaattgctttgaatattttttgctcttttctttcttcttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G151236_T03 (Zea mays), 3'ss of exon 9
ttacatttgtatatatgttctgtatggctgcattacattgtggatataattcttc---tctaattgctttgaatattttttgctcttttctttcttcttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
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-catatctgttcaactcttaagtgaacttgcaaatacttctctaattgattgaacaaataaaaatgctctaaatgaacgtg--tctaactttccatttcatagGGTGCCTTTACTATGCAACACTTTGATCAAGATCTCAATTTTCATGCTACCGAGGAGGATCCTGTGACAAAAACG
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 12
-ttacatttgtatatatgttctgtatggctgcattacattgtggatataattcttctctaattgctttgaatattttttgctc-ttttctttcttc-ttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
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atta-attctcttatgtggt-tgtaccttca-attcaatttttggtgtaaatacatttgttgtgttgttaatgatatatacttatttactatcttccttgcagGGAGCATTTACTGAACAGCATTTTGATCAGGATCTGAATTTTCTTGCTACTGAGGAGGATCCTGTAACAAAAAGG
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G42220.1 (Glycine max), 3'ss of exon 15
-ttacatttgtatatatgttctgtatggctgcattacattgtggatataattcttctctaattgctttgaatattttttgctc-ttttctttcttc-ttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
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atta-atcctcttatgtgg-ctggaccttca-attcaatttttggtgtaaataaatttgttatgttgttaatgatatctacttatttactatcttcctttcagGGAGCATTTACTGAACAGCATTTTGATCAGGATCTGAATTTTCTTGCTACTGAGGAGGATCCTGTAACAAAAAAG
upper sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G25840.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------------------------------------------------------------------------ttacatttgtatatatgttctgtatggctgca-ttacattgtggatataattcttctctaattgctttgaatattttttgctcttttctttcttcttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
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gttagcattaaactagattgggtgttgtgaatgtcacctgatcactgatcaaaatgtcttccaaatgataactttccttaggcaaatccatatgtatggtggagatatagttgtatgtttaagagaagcagtttttaat-gcatgttctaatgttt---ctgttatttggtttaacagGGAGCATTTATTGATCAGCACTTTGATCATGACTTGAACTTTTATGCTACAGAGGAAGACACCGTTAGTGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataattcttctctaattgctttgaatattttttgctcttttctttcttcttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
ctctaat putative branch site (score: 3)
tattttttgctctttt putative PPT
taattgctttgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttacatttgtatatatgttctgtatggctgcattacattgtggatataattcttctctaattgctttgaatattttttgctcttttctttcttcttacagGGAGCATTTACTGATCAGCACTTTGATCAGGACCTTAATTTCCATGCCACTGAGGAGGATCCTGTCACAAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - tggctgc
- - - - - - - - - - - - - - - - - - -ttgtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctttg