Sequence
atgc intronic sequence ATGC exonic sequencegtaataattactgtcattaaaataacttaacatgaccaaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g11540.1 (Oryza sativa), 3'ss of exon 9
gtaataa-ttactgtcattaaaataacttaacatgacc----aaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
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gtaaaatcttggaatctttgaaagaaaatggaattgttcttgatgtttagtttattagcactttctagttgtgattgtcctaaatttacttgttatg---------ttttgcagCCTGTGTTCTTCAGTCTGAATGCCTATATTAGCCTTATCAAGCCTGACCAAACCATGTGGTACCGAGCTTGCAAGACCTGCAACAAGAAGGTGACTGAGG
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G098714_T01 (Zea mays), 3'ss of exon 9
--gtaataattactgtc-attaaaataacttaacatgaccaaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
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gtataatcgtcaatatccactgaacgatgatattatttatatcttgaattga---aaaattgtaaatttggagaacccccaatttgaccctttta--tttgttgcattgcagCCTGTTTTCTTCAGTTTGTATGCCACCATAAGCCACATCAAGCCTGACCAGAACATGTGGTACCGTGCTTGCAAGACCTGCAACAAGAAGGTGACTGAAA
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G468475_T01 (Zea mays), 3'ss of exon 8
gtaataattactgtcattaaaataacttaacatgaccaaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
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gta-cgaccctgaatattcac-taaaataacactgttcgtatcttcaatggaagagttgcaaatctggagaagctccaattcaacttctt---gttttttcctttgcagCCTGTTTTCTTCAGTCTGTACGCCATCATAAGCCACATCAAGCCTGATCAGATTATGTGGTACCGTGCTTGCATGACCTGCAACAAGAAGGTGACTGAAG
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G08660.2 (Glycine max), 3'ss of exon 9
------------------------------gtaataattactgtcattaaa----ataacttaacatgacca--aactggtcttagccaaagtttt----gagttaaaaccatattcagttttgataatgtgggcttgt----ctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
| || || | ||| | | || | || | || | ||| | || ||| || || | | | ||||| | | ||| | || || ||||| | ||||| || | || | | | ||||||||||| ||||||||||| |||||||||| || || |||||||||||||| |||||||| || ||
gtatttggttgcaaattttcctgaatgttgggcattgctaatacgattccatctgcttgtttgatataaacattcattggaactcttagaaatttcaatggattttcattagtttctagtttaacttgtagtctcttatgttgctttgggcagCCCGCATTTTTCAGTCTTAGAGGACATATAAGCTTCATAAAGCCTGATCAGGCAATGTGGTATCGTGCCTGTAAGACATGCAATAAGAAAGTTACTGAAA
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G00370.2 (Glycine max), 3'ss of exon 9
----------------------------------------------------gtaataattactgtcattaaaata-acttaacatgaccaaactggtcttagccaaagttt--tgagttaaaacc---atattcagttttgataatgtgggct-tgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
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gtatttggttattaattttcctgaatgttggacattgctaatacagttccatgtggttgtt--tgatataaacattcattagacatgtt--attggaactcctgcaaattttaatggattttcatccgagtttctagtctaacttgtctcttctgttgctttgggcagCCTGCTTTTTTCAGTCTTAGAGGACATATAACCTTCATAAAGCCTGATCAGGCAATGTGGTATCGTGCCTGTAAGACATGCAATAAGAAAGTTACTGAAA
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G08020.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaataattactgtcattaaaataacttaacatgaccaaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
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---------------------------gtacttcaaaacacttttaacatattaagatatggaaaaaagaaaagttgatttatgagtct-cgtatatatat---tgcagCCTGTATTCTTCAGCACTAGAGCTTACATAAGCTTCATCAAGCCAGACCAAACAATGTGGTACCGTGCTTGCAAGACCTGTAACAAGAAAGTTACTGAAG
upper sequence: Vv17s0000g07440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G61000.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaataattactgtcattaaaataacttaacatgaccaaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
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gtactaaacactgaaattcaaat--cctga----accaaa--agt----gcttaattatagagttatgaacttatt--------atgaacttggattttctggat-cagCCTGTATTTTTCAGCACTAGGGCTTACATAAGCTTCATCAAACCAGACCAAACAATGTGGTACCAAGCTTGTAAGACTTGTAACAAGAAAGTGACAGAAGMapped 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|33408787|gb|CF214414.1|CF214414EST: GGGTTTCCCTTTCTCATGTAACCAGCAACCCATC-TTGGGTGAAGACAAG CCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAG
genomic: GGGTTTCCCTTTCTCATGTAACCAGCAACCCATCTTTGGGTGAAGACAAGgtaataatta ... ctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
ttttgat putative branch site (score: 4)
cttgtctct putative PPT
ttttgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataattactgtcattaaaataacttaacatgaccaaactggtcttagccaaagttttgagttaaaaccatattcagttttgataatgtgggcttgtctctgtacagCCTTCCTTTTTTAGCATCAGGGCATACATAAGCTTCATCAAGCCTGATCAAACAATGTGGTACCGGGCTTGTAAGACATGCAACAAGAAAGTCACAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG