Sequence
atgc intronic sequence ATGC exonic sequence...cgcacattttgtctaaatagtgaaactagttgttagttgttatatacatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCCAAAATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 3
--------cgcacattttgtctaaatagtgaaactagttgttagttgttatatacatcatccgta-accccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCCAAAATTA---
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tttatttattcgtctgctacctttgtttcaaatatatttttaaataatttggtattgctgccttacattttctaagt---gggtttatgtgctgtttttg------cagGGAGTTTTTGGTTGATCTCATGGCTGCTCCCGGTACTCTTATTCCATCAGATGTCTTAAGTTGGAAGGGCAACTCATTAAATTC---TAATGCAAGACTCACC
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------------------------cgcacattttgtctaaatagtgaaactagttgttagttgt-tatatacatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCC-AAAATTA
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gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactct-tgtaaatggttgaggcaatcattggatgtctctataagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT-
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------cgcacattt-----tgtctaaatagtgaaactagttgttagttgttatatacatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCC-AAAATTA
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gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtaatcattggatacaaatttatatgcatggaaatgattgatgcgatcattggatatctctaagtttacccggaaagt-ttatgttgtggtactgacatctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGCCTTACAATCCCAAGATT-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|254916843|gb|GR905669.1|GR905669EST: ACTGGCATAGAGGATGATGCTGTCAACATAATAAAATTGGATAATGAAGG GGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGA
genomic: ACTGGCGTAGAGGATGATGCTGTCAACATAATAAAATTGGATAATGAAAGgttacaactt ... ctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCCAAAATTA
atctaat putative branch site (score: 3)
tccctgtttttctgtt CT-rich tract
atctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgcacattttgtctaaatagtgaaactagttgttagttgttatatacatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCCAAAATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - -gaaacta
- - - - - - - - - - - - - - - - - - - - - - - catcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aacccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catggat