Sequence
atgc intronic sequence ATGC exonic sequence...ttccttttttttgtccctgaaattaattccaaaacatatccatgtgaaattcttcttcaattttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g49986.1 (Oryza sativa), 3'ss of exon 2
ttccttttttttgtccctgaaattaattccaaaacatatccatgtgaaattcttcttcaattttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
| || | | |||| | | | | || |||| | ||| | | | | ||||| | | | | |||||||||||||||||| | | || || || || || || ||||| ||||||||||| ||||| |||||||||||||| || || || |||||||| ||
----gtgacaatgcctccaaaatcagatgctgc-cgcatgcatgccgccactcgatccaaaatctcatggtgtttttgtgcgtcgcgtgcgtgcgtacagATGGTCCAAGATTGCGGCACGGCTCCCCGGGAGGACGGACAACGAGATCAAGAACCACTGGAACACCCACATCAAGAAGAAGCTCAAGAAGATGGGCCTT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g33150.1 (Oryza sativa), 3'ss of exon 2
-ttccttttttttgtccctgaaat-taattccaaaacatatccatgtgaaattcttcttcaattttaatttatatgt--ttgttttttca-acgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
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gtacgataacattgtcctcgacacgttgggacaacatgcctgaacgtatgataaattagtt-ttttaatgtatatataaccatttttatatacaaaacatgttagGTGGTCTAAGATTGCGTCTCATTTGCCTGGGAGGACGGACAACGAGATCAAGAACCACTGGAACACTCACATCAAGAAGAAGCTCAAGAAAATGGGGATC
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G106558_T02 (Zea mays), 3'ss of exon 2
--------------ttccttttttttgtccctgaaatt-aattccaaaacatatccatgtgaaatt-cttcttc-----aattttaatttatatgtttgttttttcaacgt------ggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
|| | | |||||| | || | |||| || | | ||| | | || || | | ||| | | | |||||| || || | | || ||||| |||||||| || || | |||||| |||| || ||||| || |||||||| ||||| |||||||||||||| || || | |||||||| ||
gtgccatgcatgcattgcatacccccacttctgaaaatgaactgtgttctgtatctatcttagattacatatttgaaggaaaataagcttagttttctttttttttaatgttcttaaaaaatgttagGTGGTCAAAGATTGCGTCGCACATGCCAGGACGAACGGACAACGAGATTAAGAACCACTGGAACACCCACATCAAGAAGAAGCTCAGGAAGATGGGGATC
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G04580.1 (Glycine max), 3'ss of exon 2
ttccttttttttgtccctgaaattaattccaaaacatatccatg--tgaaattcttcttcaattttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT-
|| |||| | || || | | | | | | | | || ||| || || |||| | || ||| ||| | ||||||||||| ||||||||||||||||| ||||||||||||||||| || |||||||| || |||||||||||||| |||||||| || || || ||||| |||
---agttatttttcctatgtaaacattcctagtatggaccttttgttggaatcatttttttcctttactaattacagatgtcctttttttccccttatgcagaTGGTCTAAGATTGCTTCTCATCTCCCAGGAAGAACCGATAATGAGATCAAGAATCACTGGAATACCCACATAAAGAAAAAGCTCAAGAAAATGGGAATTG
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G33620.1 (Glycine max), 3'ss of exon 2
--ttccttttttttgtccctgaaattaattccaaaacatatccatgtgaaattcttcttcaattttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
| | | | || ||| | || || | | || |||| | | | | || | | |||| || ||||| | | ||||||||||| ||||||||||||||||| ||||||||||| ||||| || |||||||| || ||||| |||||||| |||||||| || || || ||||| |||
cctagtatggaccttttgttggaatcatttttttaataataataattgtgattcctttactaatt--actgatatcttgtatttttttcctcccttatgcagATGGTCTAAGATTGCTTCTCATCTCCCAGGAAGAACTGATAATGAGATCAAGAATCACTGGAACACCCACATAAAGAAAAAGCTCAAGAAAATGGGAATT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G39530.1 (Glycine max), 3'ss of exon 2
ttccttttttttgtccctgaaattaattccaaaacatatccatgtgaaattc--ttcttcaat-tttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
|| |||| ||| | || | || || ||| | || | ||| | || | || | | |||| | |||| ||| | | | ||||||||||||||||||||||||||| || |||||||| ||||| || || || ||||||||||| |||||||| |||||||| || || || ||||| |||
tttctttcattttcgcgtgttttcttttgtaatcaata-ctatatactatttaatactactatatatcattttactaattgtcattttcctttttact--cagATGGTCCAAGATTGCTTCTCATCTCCCTGGAAGAACTGATAATGAGATAAAAAACCATTGGAACACCCACATAAAGAAAAAGCTCAAGAAAATGGGCATT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G41180.1 (Glycine max), 3'ss of exon 2
ttccttttttttgtccctgaaattaattccaaaacatatccatgtgaaattcttcttcaattttaatttatatgtttgttttttcaacgtggattt---gcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
|| | | ||| | ||| || | |||| | | | || | |||| ||| |||| ||| | || ||| | ||| ||||||||| ||||||||||||||||| || |||||||| ||||| || || || || |||||||| || ||||| |||||||| || || || ||||| |||
tttttcatgtttttttatgacttttagattaaaattcggttagtcatactcttttattaatt---attgatatttttttcttgtcatttttttttttactcagATGGTCTAAGATTGCTTCTCATCTCCCTGGAAGAACTGATAATGAGATAAAAAATCATTGGAACACACACATAAAGAAAAAGCTCAAGAAAATGGGCATT
upper sequence: Vv14s0006g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G16600.1 (Arabidopsis thaliana), 3'ss of exon 2
ttccttttttttgtccc-tgaaattaattccaaaac--atatccatgtgaaattcttcttcaattttaatttatatgtttg---ttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
| || ||| ||||| | | | | | | || | ||||| | || | | ||| || ||| ||| || ||| | ||||||||||| |||||||| |||||||||||||||||||| ||||| ||||| |||||||||||||| || ||||| |||||||| || | || |||||||||
------tagttggtctgatgaaaatgactgaacagtcgaaatatttactaaattttaagcttatatgattttgaatctttaacttttattttgtgtgtgtgtgcagATGGTCAAAGATTGCCTCTCATCTACCAGGAAGAACTGATAATGAAATAAAGAACCATTGGAACACACACATAAAGAAAAAGCTAAGGAAAATGGGTATTMapped 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|71856377|gb|DT005432.1|DT005432EST: GATTTTGAAGAGCAGATGGTTATTGATCTCCATGCTCAACTCGGCAACAG ATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAA
genomic: GATTTTGAAGAGCAGATGGTTATTGATCTCCATGCTCAACTCGGCAACAGgtttattttt ... ggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaattcttcttcaattttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
ttttaat putative branch site (score: 3)
ttcttcaattttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccttttttttgtccctgaaattaattccaaaacatatccatgtgaaattcttcttcaattttaatttatatgtttgttttttcaacgtggatttgcagATGGTCCAAGATTGCTTCTCATCTACCAGGAAGAACCGATAACGAAATCAAGAACCATTGGAATACCCACATCAAGAAAAAACTTAAAAAGATGGGTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - gtccctg
- - - - - - - - - -aaattaa
- - - - - - - - - - - - - - ccaaaac
- - - - - - - - - - - - - - - - - - - - catgtga