Sequence
atgc intronic sequence ATGC exonic sequence...ctgtgccgactagtcaaaatttaactttgttgattgatttctgctgctatggtaactcatgactgccacatcctattaagatggaggaatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g59020.1 (Oryza sativa), 3'ss of exon 10
--ctgtgccgactagtcaaaatttaactttgttgattgatttctgctgctatggtaactcatgactgccacatcctattaagatggaggaatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
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atgagcatctgtttatgtaccttggtttatgatg-ttcattgtccttagtatatacattgttgctttttgcttcctatattgatagtt-aacaattatgcagGTTGGACCAGTATGCCATTGCAAAATTTGCTGAAAGTTTTGAAATGGTTCCAAGAACCCTGGCTGAAAATGCTGGGCTTAGTGCTATGGAGATAATATCT
upper sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G381744_T01 (Zea mays), 3'ss of exon 10
------------------------------------------------------------------ctgtgccgacta--gtcaaaatttaactttgtt---gattgatttctgctgctatggtaactc-atgactgccacatcctat--taagatggagga----atggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
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gtaagtttgtttctatcatgattaattaataacttttcagttttcatgtacaaggtaacagtacatctgctttcaatatgatcagggttaacccttcctcaaaataaaaacaaacaacaatcatttttttgtagtttatggataccaccatgaagtgttgggtttgatgattgtacagGTTGGACCAGTATGCCATTGCGAAATTTGCTGAAAGCTTTGAAATGGTTCCAAGAACCCTGGCAGAAAATGCTGGACTTAGCGCAATGGAGATAATATCC
upper sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G083095_T03 (Zea mays), 3'ss of exon 10
--------------------------------------------------------------------------ctgtgccgactagtcaaaatttaactttgttgattgatttctgctgcta-----tgg----taactcatgactgccacatcctattaa-gatggagg--aatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
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gtaagtttgtttctaccatgatagttaataacttatcatgtacaaggtatgagtacatctgctttcaatatgagcagggttaaccctttgaaagaaaaaatagtttagtggccgacaccatgaagtgttgggttctatattatgttcccctcaatcattcactggttgctcttaacaattgtgcagGTTGGACCAGTATGCTGTTGCGAAATTTGCTGAAAGCTTTGAAATGGTTCCAAGAACCCTGGCAGAAAATGCCGGACTTAGCGCAATGGATGTAATATCC
upper sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G07910.1 (Glycine max), 3'ss of exon 10
--ctgtgccgactagtcaaaatttaactttgttgattgatttctgctgctatggtaactcatgactgc-cacatcctattaagatggaggaatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
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ttatgtctctattcatccggacttaagttattttgttcaat---gcttatttggtatttcacacgtgaatgggatggactaaacgtttgcaatggccctgcagGTTGGATCAGTATGCTATTGCAAAATTTGCTGAAAGTTTTGAAATGATTCCTAGAACTTTGGCTGAGAATGCTGGCCTAAATGCAATGGAGATCATATCT
upper sequence: Vv08s0007g07460.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G26920.1 (Glycine max), 3'ss of exon 10
---ctgtgccgactagtcaaaatttaactttgttgattgatttctgct-gctatggtaactcatgactgccacatcctattaagatggaggaatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
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ttactgtctctattcactggacttaatttattttgttcaatgcttatttggtatt-tgacacgggaatggaatggacta--aacattt-gcaatggccctgcagGTTGGATCAGTATGCTATAGCAAAATTTGCTGAAAGTTTTGAAATGATTCCTAGAACTTTGGCTGAGAATGCTGGGTTGAATGCAATGGAGATCATATCTMapped 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|110687426|gb|EE064824.1|EE064824EST: GAAATTGAGCTTGCTAGNAAATTGAAGGAATTCTCTTTTAAAGAGACAGG ATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCC
genomic: GAAATTGAGCTTGCTAGAAAATTGAAGGAATTCTCTTTTAAAGAGACAGGgtatttcttt ... ggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctatggtaactcatgactgccacatcctattaagatggaggaatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
tggtaac putative branch site (score: 2)
tattaagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtgccgactagtcaaaatttaactttgttgattgatttctgctgctatggtaactcatgactgccacatcctattaagatggaggaatggttttgcagATTGGATCAGTATGCCATTGCAAAGTTTGCTGAAAGTTTTGAGATGGTTCCTAAAACCCTAGCTGAGAATGCTGGGCTTAACGCCATGGAGATAATATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- -tgccgac
- - - - - - -tcaaaat
- - - - - - - - - - - - - - - - - - - -tctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccaca