Sequence
atgc intronic sequence ATGC exonic sequence...tttgtttcctcttcctttgtttcatgctctctaagtaacaaaatcacaactaattttattctcatgtaacatcttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g11550.1 (Oryza sativa), 3'ss of exon 8
------------------------------------------------tttgtttcctc-----ttcctttgtttcatgctctctaagtaacaaaatcacaactaattttatt--ctcatgtaaca---tcttgttgactggttcaaaaaatc-ttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
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gtaactgctagttttgatacttttcatgaactagatattagtatgcaatctgttactttactagctcttttattacattat-tctaacttataatagatgtatcgattttagttgttcatgtaataaggtttcctttatacataccttgaatgatccagGTATGTACCTTGCAAGAGGAAACCATGAGAGCAAGAGCATGAATAAGATATATGGTTTTGAGGGAGAAGTGAGGTCGAAGTTGGGAGAAGCATTTATTGA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G126435_T02 (Zea mays), 3'ss of exon 7
tttgtttcctcttcctttgtttcatgct--ctctaagtaacaaaatcacaactaattttattctcatgtaacatcttgttgactggt-tcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
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--tacttgagcagttctggtgttatgttaacttttgataaaacatgggcttgaagttgtagttttac-taatattgcactggcaaatctttttaattttccagCTATGTACCTTGCAAGAGGAAATCATGAAAGCAAGAGCATGAACAAAATATATGGCTTTGAGGGGGAAGTGAGGTCAAAGCTGGGTGAGAAGTTTGTTGA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 8
tttgtttcctcttc-ctttgtttcatgctctctaagtaacaaaatcacaactaattttattct--catgtaacatcttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA-
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--tcttctttcttcactttatctggttctct-tgtttgagagaatgctatttgtttttgtcttggcacattgtaacttgttttgttgc-catgtgattttcagcCATATATTTAGCCAGAGGAAATCATGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAGGGTGAGGTGCGCTCGAAGTTGAATGAAACATTTGTCGAA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G42380.1 (Glycine max), 3'ss of exon 8
tttgtttcctcttcctttgtttcatgctctctaagtaacaaaatcacaactaattttattctcatgtaacat--cttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
|| || || || || | || | | | | ||| | |||| | || | || | ||| || | | || | || |||||| |||||| | | ||||||||||| ||||| ||||||||||||||||||||||||||||| || ||||| | || ||||||| |||||||||||| ||
-ttcttctttcctcactttatccagttcggttgtttgagagaatgttattcgtttttctcctagtatattgtaacttattttgttgc-catatgattttcagCCATATATTTAGCCAGAGGAAATCATGAGAGTAAGAGCATGAACAAGATATATGGTTTTGAGGGTGAGGTGCGCTCGAAGTTGAATGAAACATTTGTCGA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G42810.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------tttgtttcctcttcctttgtttcatgctctctaagtaacaaaatcacaactaattttattctcatgtaacatct----tgttgactg--gttcaaaaaatctt------cagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
||| || || || || | | ||| | | | | || || || | | ||| | ||| | | || | | | || |||| |||||||| | |||||||| || || ||||||||||||||||| || ||||||||||| || ||||| | |||||||||||||||| ||| |||||
gtaagttctctaaaactttgttgtaataattctttgatgttcatgttttaattgcttttgctatcactggcaaggattaaattatttactattgtctgatggggttaaaagtttccattttaattgtaaatcgccatttacacacctttgtactgcagCCATATATCTAGCCAGAGGAAACCATGAAAGCAAGAGCATGAACAAAATTTATGGTTTTGAGGGTGAGGTTCGGTCCAAGTTGAGTGAAAAATTCGTGGA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S80_144V6.1 (Physcomitrella patens), 3'ss of exon 7
tttgtttcctcttcctttgtttcatgctctctaagtaacaaaatcacaactaattttattctcatgtaacatcttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
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tatatgttctgatgagcttattcagtgtatatcaggagactgatcacacttaactcactctacttcctctctaacctcgttttatttattgtctgaatagGGCTGTACCTTTCTAGAGGTAATCATGAAAGCAAGAGCATGAACAAAATATATGGTTTTGAAGGGGAGGTTAACGCGAAGTTCAATGAGACAATGAATAA
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S87_139V6.1 (Physcomitrella patens), 3'ss of exon 8
-tttgtttcctcttcctttgtt--tcatgctctctaagtaacaaaatcacaactaattttat---tctcatgtaacatcttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
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agtaagttgtgatgagtttgttgtttttgtaaatcaggagactgagtcctgtcaatttttttataccctgcctaacatgtttttg--tgtgtgattgaat----agGACTGTACCTTTCCAGAGGTAATCATGAAAGTAAGAGCATGAACAAAATATATGGTTTTGAAGGAGAAGTCAACGCGAAGTTCAATGAGACTATGACGAAMapped 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|110380672|gb|EC945956.1|EC945956EST: TTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAG CTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATAT
genomic: TTTAGAGGTCATCCTCACACTGTTTGCATTTAAGTGCATGTCTCCATCAGgtattccctc ... aaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaactaattttattctcatgtaacatcttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
tcttc CT-rich tract
taattttattctcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtttcctcttcctttgtttcatgctctctaagtaacaaaatcacaactaattttattctcatgtaacatcttgttgactggttcaaaaaatcttcagCTATATATCTCTCTAGAGGAAATCACGAGAGCAAGAGCATGAACAAGATATATGGTTTTGAAGGGGAGGTCAGATCCAAGTTGAGTGAAACATTTGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - ctcttcc
- - - - - - - - - - - catgctc
- - - - - - - - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - caactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgactgg