Sequence
atgc intronic sequence ATGC exonic sequencegtacttctctactaatttgtatattatttatggtcatattttgttgaagtcactctcttcatgcacatggcttgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g11550.1 (Oryza sativa), 3'ss of exon 10
-----------------------------------------------gtacttctctactaatttgtatattatttatggtcatattttgttga---agtcactctcttcatgcacatggcttgtttga--------cagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
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gtatgaagtaaaatttgttaaaaagtttccggttggaattggatctttcaaacatctgttatttgtaatagtgtcaagagct-tgttttgttcccttggaaaattatttcacttatttgatttgcctgatgatgttccagACCTTGTTGTTCGATCCCATGAAGTGAAAGATGAAGGCTATGAAATTGAACATGATGGAAAGCTTATAACGGTGTTCTCTGCTCCCAATTATTGCGACCA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G126435_T02 (Zea mays), 3'ss of exon 9
gtacttctctactaatttgtatattatttatggtcatattttgttgaagtcactctcttcatgcacatggcttgt---ttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
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gtaaatattgtgggatctcaat--tactgaaggagaatttacacgtgaatttttttcatcttttgttttcttaatgagttgccagATCTTATTGTCCGGTCTCATGAAGTAAAGGATGAAGGCCATGAAATTGAACATGATGGAAAGCTTATAACAGTCTTCTCTGCGCCTAATTACTGTGACCA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 10
gtac-ttctctactaatttg-tatattatttatggtcatattttgttgaagtcactctcttcatgcacatggcttgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA-
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-tatgttttgcattagtctgatgttttattaatgcttatttgttctttaa-tcagtggcttcacataaattaccaattt-acagaTTTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAG
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G42380.1 (Glycine max), 3'ss of exon 10
gtac-ttctctactaatttg-tatattatttatggtcatattttgttgaagtcactctcttcatgcacatggcttgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
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gtatgttttgcattagtctgatgttttattaaagcttatttgttctttaa-tcagtggcttcacataaattaccaattt-acagATTTAGTTGTGAGATCTCACGAAGTAAAGGATGAGGGTTATGAGATTGAACATGAGGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G42810.2 (Arabidopsis thaliana), 3'ss of exon 11
------gtacttctctacta--atttgtatattattt---atggtcatattttgttgaagtcactctcttcatgcacatggcttgtt-tgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
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gttagttcactgtcttgttattatcggggtttggtttcgcaaactaatatttacttgagatagctattaacttgcattttcatgattgtggcagATTTGTTGGTCCGGTCACATGAAGTAAAAGATGAAGGTTATGAGGTTGAACATGACGGTAAACTCATAACTGTCTTCTCTGCGCCAAATTACTGTGATCAMapped 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|110380672|gb|EC945956.1|EC945956EST: TTCCTTTGGTGTAGATGTGACAAAAAGATTCTTGCAAGAAAACAATCTAG ATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAAC
genomic: TTCCTTTGGTGTAGATGTGACAAAAAGATTCTTGCAAGAAAACAATCTAGgtacttctct ... tgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatggtcatattttgttgaagtcactctcttcatgcacatggcttgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
cttgttt CT-rich tract
atattttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttctctactaatttgtatattatttatggtcatattttgttgaagtcactctcttcatgcacatggcttgtttgacagATTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT