Sequence
atgc intronic sequence ATGC exonic sequence...acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaagtgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g04280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G32410.1 (Glycine max), 3'ss of exon 6
acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaagtgatgtt--atgatgtgtgtcataatgatc---tctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG
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-----------------------------------gtgcatcag-taaatagatgcttgaaatcaagtaacatattaaccaggactgcttgttcatttgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTATATGCAGCAGGACTGGGCC
upper sequence: Vv07s0005g04280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G35140.3 (Glycine max), 3'ss of exon 1
------------------------------------------------------------acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaag---tgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG
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gtaaatgcagcgtttggatgtcttacatgatgttacgagtgatttgtttgttctccttgaacactagtgctgctgtctaccatacatggatgtgcat-cagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatt----tgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCC
upper sequence: Vv07s0005g04280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G35140.1 (Glycine max), 3'ss of exon 6
acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaagtgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG-----------------------------------
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-------------------------------------gtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatt----tgtttcaggctttttgaacgaggattagcttatgttggaacagATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCCTGCCTTGCTGTGATCTACACCAGAATATTAGAGAA
upper sequence: Vv07s0005g04280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G35140.2 (Glycine max), 3'ss of exon 1
--acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaa---gtgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG
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gaacactagtgctgctgtctaccatacatggatgtgcat-cagtaaatagatgcttgaaatcaagtcacatattaaccaggactgtgttcatt----tgtttcagGCTTTTTGAACGAGGATTAGCTTATGTTGGAACAGATTATCTTTCTTTTCCCCTCTGGGATAAATACATTGAATATGAGTACATGCAGCAGGACTGGGCCMapped 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|71855441|gb|DT004496.1|DT004496EST: TATTGCATATTTGCCATAAGCACATATGGAGATCCAGATACAATCCGAAG GCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCC
genomic: TATTGCATATTTGCCATAAGCACATATGGAGATCCAGATACAATCAGAAGgtaatagctt ... ggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaagtgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG
ggctaaa putative branch site (score: 3)
tctctcctttttatg putative PPT
tttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acattagttccgctgtctcgcattcatggatgttcttgcaacggctaaagtgatgttatgatgtgtgtcataatgatctctcctttttatggtgtttcagGCTGTTTGAACGGGGACTAGCTTATGTAGGAACAGATTACCTGTCATACCCCCTTTGGGATAAATTCATAGAATATGAGTATTCACAGCAGGAGTGGTCG
- - - - -ccgctgt
- - - - - - - - - -gcattca
- - - - - - - - - - - - - tggatgt
- - - - - - - - - - - - - - - - - -ttgcaac
- - - - - - - - - - - - - - - - - - - - - - - aaagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt