Sequence
atgc intronic sequence ATGC exonic sequencegtattatcttcatgttttcgattgccctgattaaggccctttgtggatttggtttttagtttctgaactgttcctttctatatgatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g46894.1 (Oryza sativa), 3'ss of exon 4
---------gtattatcttcatgttttcgattgccctgattaaggccctttgtggatttggtttttagtttctgaactgttcctttctatatgatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
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tttgctgttatctattctttgttttttcctgaaaccttgtttgcgaccttacctgtttaaatttcttatggtgtcaaaatttccctctatattatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAGAATAGAACCACGATGACCTCAATTTCAGAATGGCCAGAATGGATTTCGGAGGTTTTGATTTATAATC
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G044143_T01 (Zea mays), 3'ss of exon 4
---gtattatcttcatgttttcgattgc---cctgattaaggccctttgtggatttggtttttagtttctga-actgtt----cctttctatatgatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
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tctttgttctttacaaactaagacttgtatgctttttatttatcatttttagatcttgttt--agtttcttatggtgtcaaaatatttctatgttatttcagGATATTCTGTTTTTGGCTTGTAGTCATCTAGATAACAGAACTACAATGACCTCGATTTCAGAGTGGCCAGAATGGATTTTGGAGGTTTTGATTTCGAACC
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G45540.2 (Arabidopsis thaliana), 3'ss of exon 6
gtattatcttcatgttttcgattgccctgattaaggccctttgtggatttggtttttagt--------ttctgaact-gttcctttctatatg-atttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
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agattagttgtctggacctt-ttattctgaaagcgttcacctgtccagttcctcttcattcaatgactttctgatctcgctcttttctgtttgtatgtcagGATCTTCTTTTTTTGGCTTGCAGTCATCCGGAAAATAGAAGCAGTCTGACAACAATGGAAGAGTGGCCTGAGTGGATCTTGGAGATACTGATCTCGAACT
upper sequence: Vv15s0048g01650.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G60920.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------gtattatcttcatgttttcgattgccctgattaaggccctttgtggatttg---gtttttagtttctgaactgttcctttcta----------tatgatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
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gtataaatgtcatagttaaagacacttttgtgcac-caaatgcacttgtgaaagtgctctacaaacttctacttgtccggtctctacaatgtctccttctgaactcactttttctacgtcagGATATTCTATTTTTGGCTTGTACCCATCCAGAAAAAAGGAGTAGTCTGACCAAAATGGAAGAGTGGCCTGAGTGGATCTTGGAGATTTTAATCTCTAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctttgtggatttggtttttagtttctgaactgttcctttctatatgatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
tttctatatgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatcttcatgttttcgattgccctgattaaggccctttgtggatttggtttttagtttctgaactgttcctttctatatgatttcagGATCTTCTGTTTTTGGCTTGCAGTCATCCAGAAAATAGAAGCAGTCTTACTAAAATGGAGGAGTGGCCTGAGTGGATTTTGGAGGTCCTGATTTCCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG