Sequence
atgc intronic sequence ATGC exonic sequence...tattcatctatctttgtttaggtcatcgccacttagtaccattttgaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 7
---tattcatctatctttgtttaggtcatcgccacttagtaccattttgaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
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attcatatagtaatctatactttagtcctctcca---aaaattatatttgaagatcaaatgggttctgcttgatttatagtcctgattttctatgcaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
upper sequence: Vv11s0016g04250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G31980.1 (Glycine max), 3'ss of exon 7
----tattcatctatctttgtttaggtcatcgccacttagtaccattttgaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
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aattcatatagtaatctatactttagtcctctcca---aaaattagattgaagatc-aaatgggttctgcttgatttatagtcctgatttgctatacaatgtagGGGTGAGCTGGATTACCTCATTATTGACATGCCTCCTGGAACTGGAGATATTCAACTCACATTATGCCAG
upper sequence: Vv11s0016g04250.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 6
tattcatctatctttgtttaggtcatcgccacttagtaccattttgaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
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-gtttgttcatttccata-aaatcattg--acttcatgttttttccaga----------aacatttataaatctt---tttgaggaatttga---tgcagGGGAGAGCTGGACTATCTTGTTATCGACATGCCTCCTGGAACTGGTGATATACAACTGACCTTATGCCAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110718478|gb|EE095359.1|EE095359EST: GGTCCAATGGTTTCCGGTGTCATCAATCAACTTCTGACTACTACTGAGTG GGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATAT
genomic: GGTCCAATGGTTTCCGGTGTCATCAATCAACTTTTGACTACTACTGAGTGgtattgttgt ... aactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATAT
EST:
gi|294966635|gb|GW839626.1|GW839626EST: GGTCCAATGGTTTCCGGTGTCATCAATCAACTTCTGACTACTACTGAGTG GGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATAT
genomic: GGTCCAATGGTTTCCGGTGTCATCAATCAACTTTTGACTACTACTGAGTGgtattgttgt ... aactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
tcctgat putative branch site (score: 3)
attgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattcatctatctttgtttaggtcatcgccacttagtaccattttgaaattttggatgggtcatctgcaggttctgatcctgattgtttcaactatgcagGGGAGAGCTGGACTACCTTGTTATTGACATGCCCCCTGGAACTGGTGATATTCAACTTACTTTGTGCCAG
- - - - - - - - - - - - - -gccactt
- - - - - - - - - - - - - - - - - - - ccatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatcc