Sequence
atgc intronic sequence ATGC exonic sequence...caaaatggaactcttttattaccatttgacaccctattgcgtcctcagttcttattactatttttgcacactcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G034622_T01 (Zea mays), 3'ss of exon 4
caaaatggaactcttt-tattaccatttgacaccc-tattgcgtcctcagttc---ttattactatttttgcac---actcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
| || | || || || ||| | | | | ||| | | || | || ||||| | ||| || | | | ||| ||| ||||||| | | ||||| | ||||| |||||||| |||||||||||||||||||||||||| || |||||| || || || || || ||||| || |
-----catagctgtggatactaggatatgaaagaaatctgggaagttcaatccaatctaatgttaagtttgcccctaactgatctcgtttttttcctgt---tctcagCATTATAATGGTGATATCTCAGAGTTGGAACTATATTTTGTTATTGTAAATAATGAATATGGTGAACAATGTGAAGAAGAACTTCTCCCTGGTGGGAGGC
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G101098_T01 (Zea mays), 3'ss of exon 4
--caaaatggaactcttttattaccatttgacaccctattgcgtcctcagttcttat-tactatttttgcacactcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
| || | || | ||| | ||| | | || ||| || | | ||| | | ||| | | | | ||| | ||||||| | ||||| | ||||| |||||||| |||||||||||||| ||||||||||| || |||||| || || || || || ||||| || |
ttgtatttgcatagctgtggatactaggatacaaatttgagttcattccaatctgatgttcagtttgtccctactggtctcacttcttttccat---tctcagCATTACAATGGTGATATCTCAGAGTTGGAACTGTATTTTGTTATTGTGAATAATGAATATGGTGAACAATGTGAAGAAGAACTTCTCCCTGGTGGGAGGG
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA07G36390.1 (Glycine max), 3'ss of exon 19
caaaatggaac-tcttttattaccatttgacaccctattgcgtcctcagt-tcttattactatttttgcacactcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
| || | | ||| | | || | | | || | | | || ||| | | | | || || | || |||| ||||||| | | |||||| | || || |||||||| || |||||||| |||||||||||||| || ||||||||||||||||| |||||||||||||||| |
ggaggtgatatgtagtttgtaaagatgatatatttcagtgggattctgctgttttcttattgactca--atttttggcccaccaatctgttttgactaacagCATTATAAGGGTGACATTTCGGAGTTGGAACTATACTTTGTTATAGTAAATAATGAATATGGAGAACAAACAGAGGAGGAACTGCTTCCTGGAGGAAGGA
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA17G04180.1 (Glycine max), 3'ss of exon 19
caaaatggaac-tcttttattaccatttgacaccctattgcgtcctcagttcttattactatttttgcacactcatt-ttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
|| | ||| | | || | | | || | | || | | || || |||| || | | || || || | || || | ||||||| | | |||||| | || || |||||||| || |||||||| |||||||||||||| || ||||||||||||||||| |||||||| ||||||| |
-ggggtgatgtgtagtttgtaaagatgatatatttcagtgggacatctgctgtt-ttcttattgactcagttttttccttaccaatatgttttggctaacagCATTATAAGGGTGACATTTCGGAGTTGGAACTATACTTTGTTATAGTAAATAATGAATATGGAGAACAAACAGAGGAGGAACTGCTTCCCGGAGGAAGGA
upper sequence: Vv05s0077g00470.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA09G03680.1 (Glycine max), 3'ss of exon 7
caaaatggaactcttttattaccatttgacaccctattg-----cgtcctcagttcttattactatttttgcacactcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA---------
|| | | | | || || || || | |||| | || | || ||| | |||| ||| || | |||| | ||||| ||| ||||| | || || |||||||| ||||||||||| ||||| || ||||| || || |||||||| |||||||||||||| || ||||| |
------gggtttgtaacacaatcactttgggaattagtgatagattttctcaatgagcgtttcaatattttcccactgattctgttt--------tgactaaccgcattatgagCGTGACATTTCGGAGTTGGAACTATATTTTGTTATAGTAAACAACGAATATGGAGAGCAAACAGAAGAGGAGCTGCTTCCAGGGGGAAAGAACCTTCGTGMapped 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|110370035|gb|EC934210.1|EC934210EST: ATTTGCCTTCATTGGACCCAGAATTATACCGCCACCTTATTTTCTTAAAG CATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAAT
genomic: ATTTGCCTTCATTGGACCCAGAATTATACCGCCACCTTATTTTCTTAAAGgtgatgtctc ... tgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttcttattactatttttgcacactcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
ttattactattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaatggaactcttttattaccatttgacaccctattgcgtcctcagttcttattactatttttgcacactcattttgcctatttattgtgacctgcagCATTTTGAAGGTGACTTATCAGAATTGGAACTTTATTTTGTTATTGTAAATAATGAATACGGGGAACAAACAGAGGAGGAGCTGCTTCCTGGAGGAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- aaatgga
- - - - - - - - - - -ccatttg
- - - - - - - - - - - - - - -cacccta
- - - - - - - - - - - - - - - - - - - -cgtcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcctat