Sequence
atgc intronic sequence ATGC exonic sequence...ggttgttataagtaccgtttctcatccagatgcaatgtactcttttgtcatttagcttgttattgcttatctagcctcacagttctaacacaatgttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G27970.1 (Glycine max), 3'ss of exon 4
ggttgttataagtaccgtttct-catccagatgcaatgtactcttttgtcatttagcttgttattgcttatctagcctcac-agttctaacacaatgttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
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--tttttacatatgtcctaacagcaatatcatgcaactctatattggggcacttcttcttagtataatagtattgcttaattaggttcctcatggaatttagGTGCACCAAGCTGTCATGAAGGATGGCATGCAAGTTGCAATGAAAATTCAGTATCCTGGTGTGGCAGATAGCATTGATAGTGACATTGAGAATGTGAAGC
upper sequence: Vv07s0005g02430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G00920.1 (Glycine max), 3'ss of exon 3
ggttgttataagtaccgtttctcatccagatgcaatgtactcttttgtcatttagcttgttat-tgcttatctagcctcac-agttctaacacaatgttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
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aatttttttacatgtgtcctaacagc--aatatcatgcaactttatatcaggaaattcttagtataatagtattgcctaattaggttcctcatggaatttagGTGCACAAAGCTGTCATGAAGGATGGCATGCAAGTTGCAATGAAAATTCAGTACCCTGGTGTGGGAGATAGCATCAATAGTGACATTGAGAATGTGAAGC
upper sequence: Vv07s0005g02430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G01660.1 (Arabidopsis thaliana), 3'ss of exon 3
-----ggttgttataagtaccgtttctcatccagatgcaatgtactcttttgtcatttagcttgttattgcttatctagcctcacagttctaacacaatg-ttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
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gtactaactact-tagttagtattttgattgaagaatgcatgtgatatgtcgtccttttgagtgt-gttgaatccttttccttaattcttcgtaatgatgctttagGTGCACAGAGCTGTTACTAAAGATGGATTAGAAGTTGCAATGAAGATTCAGTACCCTGGCGTTGCCAACAGCATTGAAAGTGATATTGAAAATGTCAGAC
upper sequence: Vv07s0005g02430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S14_106V6.1 (Physcomitrella patens), 3'ss of exon 4
ggttgttataagtaccgtttctca-tccagatgcaatgtactcttttgtcatttagcttgttat-tgcttatctagcctcacagttctaa--cacaatgttca--gGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
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-----ttgca-gtgctatttcttaatacaggttcaccacctttgattttcgcaagttatgttccatccttaaaaaattgtgatgatctaaactgcgctggtcacagGTACATAGAGCTATATTGAAGGATGGGACTGTGGTTGCAATGAAGATTCAGTATCCAGGCGTGGCTAACAGCATTGACAGCGATATTGAAAATGTCAGGCMapped 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|294964960|gb|GW838763.1|GW838763EST: AGTTAACCAGTTTTGATTACGAACCACTGGCTGCTGCCAGTATAGGCCAG GTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAG
genomic: AGTTAACCAGTTTTGATTACGAACCACTGGCTGCTGCCAGTATAGGCCAGgtgattacca ... caatgttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatttagcttgttattgcttatctagcctcacagttctaacacaatgttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
ttctaac putative branch site (score: 1)
ttgttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggttgttataagtaccgtttctcatccagatgcaatgtactcttttgtcatttagcttgttattgcttatctagcctcacagttctaacacaatgttcagGTGCACAAAGCTGTAACAAAAGATGGTTTGGAGGTTGCGATGAAAATTCAGTACCCAGGTGTTGCAGATAGCATTGAAAGTGATATTGAAAATGTCAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - -tcatcca
- - - - - - - - - - - - - - gatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - tagcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcaca