Sequence
atgc intronic sequence ATGC exonic sequence...catcttttttcttttattcaatattgatatcattattcacttaaagaaaatattaccatatatgttcacattgatgatgatttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 8
catcttttttcttttattcaatat-tgatatcattattcacttaaagaaaatattaccatatatgttcacattgatgatgat----ttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG
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----taattaccactgcacattgcatgatatcaatctgtcttcatccaatggagatccctgtat-tccatattgaagccattgtgattgatcatttttcgtgcagGTGGTTGAGGTTAATGTTAAAGTGGAAAGTGCAGGCACACATAATGTGCATAATAATGCTTTCTATGCTGAAGAGAAGTTGCTCAAATCTGAGTTGCAAG
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G38990.1 (Glycine max), 3'ss of exon 8
catcttttttcttttattcaatattgatatcattattcac-ttaaagaaaatattaccatatatgttcacattgatgatgatttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG
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catctaggattcctaacacttt-ttgatataaatgtcttcatcttccatcataaagctagaactcatcaagtataagctcatatcttccctctctgcccagGTTGTTGAGGTGAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATAACAATGCATTTTATGCTGAAGAAAAACTGCTTAAATCAGAAATGGAAG
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 8
-----catcttttttcttttattcaatattgatatcattattcacttaaagaaaatattaccatatatgttcacattgatgatgatttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG
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gaaaaaaggtcttacacttccatcaaaact-ataaaattcattact---agtatgtgttcacaaataatacgacaaag-tagtaacaatcctcttcccactccagGTTGTTGAGGTGGATGTCAAAATTGAAGAGCCAGGAAAGAATAATGTTCACAACAATGCATTTTATGCTGAGGAAAAACTGCTTAAATCAGAATCGGAAG
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 8
-----catcttttttcttttattcaatattgatatcattattcacttaaagaaaatattaccatatatgttcacattgatgatgatttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG-
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ctcctgattttacagttcctttttgatataaatgtcttcctcttccatcataaactagaactcatcaagtataagctcat----attttcccactctgccca--ggTCGTTGAGGTAAATGTCAAAGTTGAAAAGCCAGGAGACAATAATGTTCATAACAATGCATTTTATGCCGAGGAAAAACTGCTTAAATCAGAATTGGAAGCMapped 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|161718570|gb|FC065389.1|FC065389EST: CTCGTATGGACATGGCTGTTGATTGTAAGCCTGGGGAGACATTCAATCAG GTTGTTGAGGT-AATGTTAAA-TTGAAGA-CCAGGGAAGA-TAATG
genomic: CTCGTATGGACATGGCTGTTGATTGTAAGCCTGGGGAGACATTCAATCAGgtaaatttat ... ttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaatattaccatatatgttcacattgatgatgatttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG
cattgat putative branch site (score: 4)
cattttttct putative PPT
attttttctata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcttttttcttttattcaatattgatatcattattcacttaaagaaaatattaccatatatgttcacattgatgatgatttgagcattttttctatagGTTGTTGAGGTCAATGTTAAAGTTGAAGAACCAGGGAAGAATAATGTTCATAACAATGCATTCTATGCTGAAGAGAAACTGCTTAGGTCTGAAATGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - -tattcac
- - - - - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatata