Sequence
atgc intronic sequence ATGC exonic sequence...gtggtagaaatctcttccttgggtacacaacttgctttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 9
---------gtggtagaaatctcttccttg--ggtacacaactt----gctttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
||| | | | | | | | || || |||| | | | || | | || | | | |||| ||| || || |||| ||||| ||||||||||||||||| ||||||||||||||| |||| ||||| |||||| ||||||| ||||| || | | | || | ||||| ||
gttagaaccgtgctgaataccaccatccaaatgataaaccacttccatacatcttaagaaatggtgaataaggttacccaggattggtgatgatctta----tctacttctgcagATTAATGACCGCTATGAGTTCCCTCTTCAACTTGATCTTGATAGAGACAATGGAAAATATCTATCTCCAGATGCAGATCGAAGTATTAGAAACCTCTATA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G551402_T02 (Zea mays), 3'ss of exon 3
-----------------------------------------------------------gtggtaga--aatctcttccttgggtaca--caacttgcttt--atggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
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gtttgttctgataacttgcacttcgttcagttagttatattgttcatgtactttagggtacacttgattgatttgtgcagtaattacaatcaatctaaatcaaatatattttaacacctattctttattgtgattgtcatgtctattaatacttgc-ttgcccagATTAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTGGATAGAGATGGTGGCAAATACATTGCTCCAAATGCAGATCGAAGTACACGAAACCTTTACA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G071441_T02 (Zea mays), 3'ss of exon 5
----gtggtagaaatctcttccttgggtacacaac-ttgctttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
| |||| | || | || || | | ||||| | | | | | ||| | || ||||| || ||| | | ||||||||||||| || ||||||||||| || ||| | ||||||||| |||| |||| |||||| | ||||| || || |||| | ||| || ||||| ||
ggatatcactatcatctgagacatgcattcaaaatacttgtctatggctgatttgcattcttgcgtcttctaaattaaattgtttttt-----tttgtgatgtagATAAATGACCGTTATGAGTTCCCACTTCAATTGGATCTTGATAGAGATGATGGAAAATATCTTTCTCCAGACGCGGATAGAAGTGTGCGTAACCTATATA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G04890.1 (Glycine max), 3'ss of exon 9
gtggtagaaatctcttccttgggtacacaacttgctttatggactgtgttt-ctccccttgacttaaagataaaattcttctttatgctctcatt--gtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
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---gttttatttttcagtccatgggctcttctcttttgatggaatggttaaactctcttttccgtaaatggaaatttaatttttttcttcttcttccatgtagATTAATGACCGCTATGAGTTTCCCTTGCAACTTGACCTTGATCGTGAGAATGGAAAATATTTATCACCTGATGCTGATAGGAATGTCCGCAATCTTTACA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 9
gtggtagaaatctcttccttgggtaca-caacttgctttatggactgtgt---ttctccccttgac---ttaaagataaaattcttctttatgctctcatt---gtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
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----------ttcagtccatgggttcttcttctcttttgatggaatggttaaactctcttttctatatattgaagtttaattttttttttcttcttcttcttccatgtagATTAATGACCGTTATGAGTTTCCCTTGCAACTTGACCTTGATCGTGAGAATGGAAAATATTTATCACCTGACGCTGATAGGAATGTCCGCAATCTTTACA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G11330.1 (Glycine max), 3'ss of exon 1
gtggtagaaatctcttccttgggta--cacaacttgc--tttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
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-tcataagtgtctatgtttctggcaattttcattcacatttgatagatcccactttttcgataca-tgaaagattaattttttct--gcgatatcactatatagATTAATGACCGTTATGAGTTTCCCTTACAACTTGATCTTGATCGTGAGGATGGGAAATATCTATCACCTGATGCTGATAGGAGTGTCCGCAATCTTTACA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------------------------------------------------------------gtggtagaaatctcttcct-----tgggtacacaacttgcttta-tggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
|| || | | | | || ||| ||| ||| | | || || | || ||| || || | |||| | | || |||| ||||||||||||||||| ||||||||||| || || ||| |||||||||| |||||| | ||||||||||| | | | ||| || || | |||
gtgaggaaaggggttttcgaaccatgcaatatgcaacattcggctggtatagcttatgtattgattgtgcatattatttagatgaaggacgtgtgtgtgtgtgtgtgtgtatttgctttgttttggttggttggtagtcacttttttactactgattacctttgaacattat--ttatgtgatgcagATTAATGATCGCTATGAGTTTCCTCTGCAACTAGACCTGGATAGAGAGAATGGAAAATATCTCTCTCCTGATGCTGACCGCAGTGTGCGAAATTTATACA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ14291 (Selaginella moellendorffii), 3'ss of exon 7
gtggtagaaatctcttccttgggtacacaacttgctttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
|| ||| || | ||| || | | | | | | | || ||| | || || | | | || | | ||||||| |||||||| ||||| ||||||||| | ||| | ||| | ||||| |||||||||||||| || |||||| |||| || | || | |||
gtaatagcttgaactacgttgtgttggtggatggttcctagttccat-tcactgaatttgggctgtttattgaacagtgcctaattatgctg----gcagATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAGGGAGAACGGCAAATATTTATCGCCGGATGCCGATAGAGGCGTGAGGAATTTGTACT
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ18164 (Selaginella moellendorffii), 3'ss of exon 7
gtggtagaaatctcttccttgggtacacaacttgctttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
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gtaatagcttgaactacgttgtgttggtggatggttcctagttccat-tcactgaatttgggctgtttattgaacagtgcctaattatgctg----gcagATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAAGGAGAACGGCAAATATTTATCGCCGGATGCCGATAGAAGCGTGAGGAATTTGTACTMapped 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|110388155|gb|EC952874.1|EC952874EST: TTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAG ATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAAT
genomic: TTCAGCTGAAGCGATTTGAATATGATTTTATGCGGGACACTATGGTAAAGgtcagcagtc ... cattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
ccttgac putative branch site (score: 4)
ttcttctttatgctct putative PPT
ttaaagataaaattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtagaaatctcttccttgggtacacaacttgctttatggactgtgtttctccccttgacttaaagataaaattcttctttatgctctcattgtgtagATAAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTTGATCGAGAGAATGGCAAATATTTATCTCCTGATGCCAATAGGACTGTTCGCAACCTTTACG
- - - - - -ctcttcc
- - - - - - - - - - - - acacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgctc