Sequence
atgc intronic sequence ATGC exonic sequence...tgtatctattttgtatcctattcctgtaattcatgtccaaatgccactgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g67160.1 (Oryza sativa), 3'ss of exon 5
----tgtatctattttgtatcctattcctgtaattcatgtccaaatgccactgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
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gtatagtgtgtgatagtttgcctcagcctgtataccttatggtaatttattcagggagtattatgcattaagccattgactaaaaccgact-tctt---aatagGTTGTTGGGAACTCCTACTGAGGAGCAGTGGCCTGGAGTAACTGATTTGAGGGACTGGCATGAGTTTCCACAGTGGAAGCCACAGATTTTAGAACGTCAA
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G495626_T02 (Zea mays), 3'ss of exon 5
tgtatctattttgtatcctattcctg-taattcatgtccaaatgccactgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT-----
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-----ttgctatgca-catattaatgacattttatatcagtctggttctaccatcctgtattatacaatgtattgactgaaatatgcttttgaaaaaaaaggttgcTGGGAACACCTACTGAGGAACAGTGGCCTGGAGTGAGTGATTTAAGGGACTGGCATGAGTTTCCACAGTGGAAGCCCCAGGGTTTGGCACGTGTCGTCCC
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G495626_T03 (Zea mays), 3'ss of exon 5
tgtatctattttgtatcctattcctg-taattcatgtccaaatgccactgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
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acagtttgctatgca-catattaatgacattttatatcagtctggttctaccatcctgtattatacaatgtattgactgaaatatgcttttgaaaaaaaagGTTGCTGGGAACACCTACTGAGGAACAGTGGCCTGGAGTGAGTGATTTAAGGGACTGGCATGAGTTTCCACAGTGGAAGCCCCAGGGTTTGGCACGTGTC
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G495626_T04 (Zea mays), 3'ss of exon 6
-tgta-tctattttgtatcctattcctg-taattcatgtccaaatgccactgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
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gtacagtttgctatgca-catattaatgacattttatatcagtctggttctaccatcctgtattatacaatgtattgactgaaatatgcttttgaaaaaaaagGTTGCTGGGAACACCTACTGAGGAACAGTGGCCTGGAGTGAGTGATTTAAGGGACTGGCATGAGTTTCCACAGTGGAAGCCCCAGGGTTTGGCACGTGTC
upper sequence: Vv08s0056g00210.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G02400.1 (Glycine max), 3'ss of exon 2
---------------tgtatctattttgtatcc-----tattcctgtaatt-catgtccaaatgccactgtgattttct-tcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
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gtatacctaaaaacttttttttattttttatttgtggatagattagtagtcacatttcttatctgccttctcatactctgttgattcaactacggtgtttcctaatttttttatcattcaagGATGTTGGGAACTCCAACAGAGGAGAATTGGCCAGGAGTTACTTCTCTGCGTGATTGGCATGTGTACCCACGCTGGGAACCTCAGAGCTTGGCAAAGAATMapped 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|110387384|gb|EC952045.1|EC952045EST: GCTTTATTTCCGGGTGACTCCGAGTTTCAACAACTGCTTCATATATTCAG GTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAG
genomic: GCTTTATTTCCGGGTGACTCCGAGTTTCAACAACTGCTTCATATATTCAGgtattttatt ... ttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
tcttgac putative branch site (score: 3)
ttttcttcctcttgac CT-rich tract
tttcatttttattttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtatctattttgtatcctattcctgtaattcatgtccaaatgccactgtgattttcttcctcttgactctttcatttttattttctatcttggaaaaagGTTGTTGGGAACGCCAACTGAGAAACAGTGGCCTGGAGTTAGTTCTCTGAGAGACTGGCATGTCTATCCACAGTGGGAACCTCAAAACTTGGCACGTGCT
- - - - - -tgtatcc
- - - - - - - - - - ttcctgt
- - - - - - - - - - - - - - - tcatgtc
- - - - - - - - - - - - - - - - - - - aaatgcc