Sequence
atgc intronic sequence ATGC exonic sequence...acttaataatcaatttgatatttttgtcattatatgtatgtttgtgtttatatgaaagctattgcagtctaatagaattcctattcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G401291_T02 (Zea mays), 3'ss of exon 2
----------------------------------acttaataatc--aatttgatatttttgtcattatatgtatgtttgtgtt-tatat----gaaagctattgcagt-ctaatagaattcctat--tcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
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gtatgttcccttttcccttttttactctaatcttattatatgagtcaaattccatatggttatgaaaataccagtcataatattatatatcttggcatggtatggctgtgctgatagttgttttatggattgttggagcattagGTGCATGTCGTTGATGGTTCTGCACAACAACCAGAATATGAGTTTGAGGCAGTTCGCTTGGAGCTGGAGTTATTTAGCCCATCTTTGGTTGACAAACC--
upper sequence: Vv05s0020g01670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G401291_T01 (Zea mays), 3'ss of exon 2
----------------------------------acttaataatc--aatttgatatttttgtcattatatgtatgtttgtgtt-tatat----gaaagctattgcagt-ctaatagaattcctattcttttcctggc--ttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
| | || | |||| |||| || | | ||| | | | || ||||| | | | ||| || || || |||| | ||| || | |||||| ||||| ||||||||||| |||| || ||||||||||||||||| || ||||| | |||||||| ||||||| || | | ||| ||||| |
gtatgttcccttttcccttttttactctaatcttattatatgagtcaaattccatatggttatgaaaataccagtcataatattatatatcttggcatggtatggctgtgctgatagttgttttatggattgttggagcattagGTGCATGTCGTTGATGGTTCTGCACAACAACCAGAATATGAGTTTGAGGCAGTTCGCTTGGAGCTGGAGTTATTTAGCCCATCTTTGGTTGACAAACCGT
upper sequence: Vv05s0020g01670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G077632_T02 (Zea mays), 3'ss of exon 2
-----------------------------------acttaataatcaa-tttgatatttttgtcattatatgtatgtttgtgtt-tatat----gaaagctattgcagt-ctaataga-attcctattcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
| || | |||| || |||| || | | ||| | | || ||||| | | | ||| | || || ||| || | | || | |||||| ||||| ||||||||||| |||| || ||||||||||||||||| || ||||| | || ||||| ||||||| || || | ||| ||||| |
gtatgttcacttttcccttctttactctaatcttaatatatgagtcaaattccatatggttatgaaaataccagtcacaatattatatatcttggcatggtatgactgtgctgataattgtttatggcttgttggagcattagGTGCATGTCGTTGATGGTTCTGCACAACAACCAGAATATGAGTTTGAGGCAGTTCGCTTGGAACTGGAGTTATTTAGCCCGTCTCTGGTTGACAAACCCT
upper sequence: Vv05s0020g01670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G28800.1 (Glycine max), 3'ss of exon 2
acttaataatcaatttgatatttttgtcattatatgtatgtttgtgtttatatgaaagctattgcagtctaatagaattcctattcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
| || | | | || | || | | | || |||| | | | || | ||| || ||| || | | | | | | |||||||||||||||||||||| |||||||||||||| |||||||| || |||||||| |||||| | ||||||| ||||||||||||||| || ||||
atttcaaagtaaagctaatttgatattttttgtatgcttctcctttttctcaccctgaagtttgttgtttaaatcaagcctatataatattgggtttcagGTACATGTTGTTGATGGTTCATCACAGCAGCCAGATCTCGAGTTTGACGCAGTTCGTCTAGAGCTGAAGCTATTTAATCCTGAACTTGCTGAGAAGCCTT
upper sequence: Vv05s0020g01670.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G10260.1 (Glycine max), 3'ss of exon 2
-acttaataatcaatttgatatttttgtcattatatgtatgtttgtgttt-atatgaaagctattgcagtctaa--tagaattcctattcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
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tatttcaaagtaaagctaat----ttgatattttttgcctgcttctttctcgcaccctgatatttgtggtttaaactttaaatcaagcctatattgggtttcagGTACATGTTGTTGACGTTTCGTCACCGCTGCCAGATCTTGAGTTTGATGCAGTTTGTCTAGAGCTGAAGCTTTTTAATCCTAAACTTGCTGAGAAGCCTTMapped 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|30133981|gb|CB919319.1|CB919319EST: TTGGTTTAGGTCATGAGTTTCTTCGGCACACCGAAAGGTGTTCTGCACTG GTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCC
genomic: TTGGTTTAGGTCATGAGTTTCTTCGGCACACCGAAAGGTGTTCTTCACTGgtattaactt ... cctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttatatgaaagctattgcagtctaatagaattcctattcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
gtctaat putative branch site (score: 3)
ttcctattcttttcct putative PPT
taatagaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttaataatcaatttgatatttttgtcattatatgtatgtttgtgtttatatgaaagctattgcagtctaatagaattcctattcttttcctggcttagGTACATGTTGTTGATGGTTCCTCACAGCAGCCAGAATATGAGTTTGATGCCGTTCGTCTTGAGCTGGAACTATTTAGTCCTGAACTTGCTGAAAAACCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcagtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatagaa