Sequence
atgc intronic sequence ATGC exonic sequence...ccatttctacaaattcatttgatatgagaattgaaaaccttatttaataaaagttctgtgtctatggatctgtgattttgagaagtttgtgtatgaacagGTGCACCTGGATATATCTCATCGACATTTCTGAATGGAATGTCATTTGTGGAAGGTTGGGAACAGAATTTTTTTATATCAAAATGGAGCATGCACCAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g01830.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G34730.1 (Glycine max), 3'ss of exon 5
-ccatttctacaaattcatttgatatgagaattgaaaaccttatttaataaaagttctgtgtctatggatctgtgattttgagaagtttgtgtatgaacagGTGCACCTGGATATATCTCATCGACATTTCTGAATGGAATGTCATTTGTGGAAGGTTGGGAACAGAATTTTTTTATATCAAAATGGAGCATGCACCAGCT
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atcatctgtattgttttagctacttagaggtcccttaattttttgttttaccatggaaaagtacataatggtgtagttgtgctcgctcattgt-tctgcagGTGCACCGGGAACCATCTATTCTACCTTTTTAAATGGAATGTCATTTGTGGAAGGATGGGAACAAAACTTTTATATTTCCAAATGGAGCATGCACCAGTT
upper sequence: Vv01s0011g01830.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G02570.1 (Glycine max), 3'ss of exon 5
--ccatttctacaaattcatttgat-atgagaattgaaaaccttatttaataaaagttctgtgtctatggatctgtgattttgagaagtttgtgtatgaacagGTGCACCTGGATATATCTCATCGACATTTCTGAATGGAATGTCATTTGTGGAAGGTTGGGAACAGAATTTTTTTATATCAAAATGGAGCATGCACCAGCT
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tatcatctgtattgttttagctacttaggggtctcttaatttttgttttgccacagaaaagtgcataatggt--gtagttgt-acttgtacattgttctgcagGTGCACCAGGAACCATCAATTCTACCTTTTTAAATGGAATGTCATTTGTGGAAGGATGGGAACAAAACTTTTATATTTCCAAATGGAGCATGCACCAGTT
upper sequence: Vv01s0011g01830.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G19860.1 (Arabidopsis thaliana), 3'ss of exon 5
ccatttctacaaattcatttgatatg-agaattgaaaaccttatttaataaaagttctgtgtctatggatctgtgattttgagaagtttgtgtatgaacagGTGCACCTGGATATATCTCATCGACATTTCTGAATGGAATGTCATTTGTGGAAGGTTGGGAACAGAATTTTTTTATATCAAAATGGAGCATGCACCAGCT
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--------gtaagttc-tctgacttgtggtacttctgatagtactggagacaactaccacactgat-------tggtttcgcattattgatt------cagGTGCTCCTGGATATATCACATCGACTTTATTGAATGGAATGTCGTTTGTCAATGGTTGGGAACAGAACTTTTTCGTCTCTAAGTGGAGCATGCATCAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataaaagttctgtgtctatggatctgtgattttgagaagtttgtgtatgaacagGTGCACCTGGATATATCTCATCGACATTTCTGAATGGAATGTCATTTGTGGAAGGTTGGGAACAGAATTTTTTTATATCAAAATGGAGCATGCACCAGCT
atttaat putative branch site (score: 4)
tgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatttctacaaattcatttgatatgagaattgaaaaccttatttaataaaagttctgtgtctatggatctgtgattttgagaagtttgtgtatgaacagGTGCACCTGGATATATCTCATCGACATTTCTGAATGGAATGTCATTTGTGGAAGGTTGGGAACAGAATTTTTTTATATCAAAATGGAGCATGCACCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
ccatttc
- - - - acaaatt
- - - - - - - - - - - - - - - - gaaaacc
- - - - - - - - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgga