Sequence
atgc intronic sequence ATGC exonic sequence...agattttacacactattgcagacaggttattccaattattagcatttctcaacaaactaattggggttctgggttttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G35080.1 (Glycine max), 3'ss of exon 6
--agattttacacactattgcagacaggttattccaattattagcatttctcaacaaactaattgg--ggttctgggttttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
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tttcatgtttctttttttttta-acaagggatccaaatt-ttgacagtgg--aacaagttatacagtaaacattaatacggatcatgtgatatgactattgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATACATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G42290.1 (Glycine max), 3'ss of exon 5
agattttacacactattgcagacaggttattccaattatta-gcatttctcaacaaactaat-tggggttctgggtt---ttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
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-----ttatttgattctgagatgagagcatctgggtcattttgcagatttaagttagttgatgttgcattttgcattaataacgtggaccctatgactattacagGGAAATCATGCATGCAATGTGGAAACCTCAAAAGTTCAAATATATCTATCTTTATGCTACCCTTTATGTATTCACACTCACCATACCATCTTCTGTTGCC
upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G03280.1 (Glycine max), 3'ss of exon 6
------agattttacacactattgcagacaggttattccaattattagcatttctcaacaaactaattggggttctgggttttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
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tgatcctgattttg-acagtggagcatacacattggcc--atttgtag-atttttaagttacgcagtaaacattaatacggaccgtgggatatgactat--tgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
upper sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G06600.1 (Glycine max), 3'ss of exon 5
agattttacacactattgcagacaggttattccaattattagcatttctcaacaaactaat-tggggttctgggtttt---ctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
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----tttatttgattttgagatgagagcatctgggtcatttgcagatttaagtttgttgatgttgcattatgcactactaacgtggaccctatgcctattacagGGAAATCATGCATGCAATGTGGAAACCTCAAAAGTTCAAATATATCTATCTTTATGCTACTCTTTATGTGTTCACACTCACCCTACCATCTGCTGTTGCCMapped 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|33407777|gb|CF213404.1|CF213404EST: ACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT GGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCT
genomic: ACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtgagtgatt ... tttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCT
EST:
gi|77585741|gb|DV221963.1|DV221963EST: ACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT GGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCT
genomic: ACTGGGGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGTgtgagtgatt ... tttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctcaacaaactaattggggttctgggttttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
aactaat putative branch site (score: 2)
ttctgggttttctttc putative PPT
ttttttttttcttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agattttacacactattgcagacaggttattccaattattagcatttctcaacaaactaattggggttctgggttttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - tacacac
- - - - - - - - -gcagaca
- - - - - - - - - - - - - - - - - - - - -gcatttc
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttctgg