Sequence
atgc intronic sequence ATGC exonic sequencegtgagaacattctgtgtttactgtttgaatggttttgttgactttgattcattgatttcagctgtcctttttggtgactttgagctcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCTACACCCAAGGTGGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g05460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G14400.2 (Glycine max), 3'ss of exon 6
gtgagaacattctgtgtttactgtttgaatggttttgttgactttgattcattgatttcagctgtcctttttggtgactttgagctcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCTACACCCAAGGTGGAGT
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gtgagagtacttgatatctgg-gctaaaacg-------tga-tttga------gaatttatcttctaatcatgtcaatcat----tcaccccttttatagGAGACCCAAGAAGCCGAGATTAAGATGCTTAGGAAGAGTCTGAATTTTAAAGCAACTCCAATGCCAAGTTTTTACCAGGAGCCTGCTCCTGCTAAGGCGG
upper sequence: Vv11s0016g05460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G31990.1 (Glycine max), 3'ss of exon 7
gtgagaacattctgtgtttactgtttgaatggttt-tgttgactttgattcattgatttcagctgtcctttttggtgactttgagc--tcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCTACACCCAAGGTGGAGT
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----------------------gtgagaatacttcatatctaggctaaattgtgaattgagaatttatcttttaatcatgtcaatcattcaccccttttatagGAAACCCAAGAAGCCGAGATTAAGATGCTTAGGAAGAGTCTGAATTTTAAAGCAACTCCAATGCCAAGTTTTTACCAGGAGCCTGCTCCTGCTAAGGCGG
upper sequence: Vv11s0016g05460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G07100.1 (Glycine max), 3'ss of exon 7
gtgagaacattctgtgtttactgtttgaatggttttgttgactttgattcattgatttcagctgtcctttttggtgactttgagctcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCTACAC---CCAAGGTGGAGT
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-------------gtgataa-tatttgatatgtaggatgaaatgtaaattgcagatattgccatttaatcacaccaacctt----tcaccttttttatagGAGACCCAAGAAGCTGAGATTAAGATGCTTCGAAAAAGTCTAGGATTTAAAGCAACTCCAATGCCAAGCTTCTACCAGGAGCCTCCTCCTCCTAGGGTGG---
upper sequence: Vv11s0016g05460.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G25480.1 (Arabidopsis thaliana), 3'ss of exon 7
---gtgaga-acattctgtgtttactgtttgaatggttt--tgttgactttgattcattgatttcagctgtcctttttggtgactttgagctcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCT---ACACCCAAGGTGGAGT
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gttgtgttctatgccctcttgtttttcttaaaatgtcctattattcatttaaagt-gtctatatgctcagtcttctactgtaaatatcatctggaatact-tgcagGAAACTCAAGAAGCTGAGCTTAAGATGCTAAGGAAGAGTCTGAACTTCAAAGCCACACCTATGCCTACCTTCTATCAAGAACCTCAGCTACCTAAAACAG---Mapped 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|110371086|gb|EC934835.1|EC934835EST: AGACTCATGCGAAGGAAGTGGAAAGAACTAATAGGCAAGCCAAATCCAAG GAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAA
genomic: AGACTCATGCGAAGGAAGTGGAAAGAACTAATAGGCAAGCCAAATCCAAGgtgagaacat ... tgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattcattgatttcagctgtcctttttggtgactttgagctcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCTACACCCAAGGTGGAGT
cattgat putative branch site (score: 4)
attgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaacattctgtgtttactgtttgaatggttttgttgactttgattcattgatttcagctgtcctttttggtgactttgagctcaaatgttctatagGAGACTCAAGAAGCAGAGATTAAGATGCTACGGAAGAGCTTAAATTTTAAAGCAACCCCTATGCCAAGCTTCTACCATGAACCTACACCCAAGGTGGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG