Sequence
atgc intronic sequence ATGC exonic sequence...ctcgtctctatggttatactttttcaaatgtatacgagtttctgaggtttacttggtggctttgctgaaaattatgattgatgttgaattttgatgccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTCCTCACTGATGAGTCAGAACTTCAGCAACATCAAAAACTTGAGAAACTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G01120.2 (Glycine max), 3'ss of exon 1
ctcgtctctatggttatactttttcaaatgtatacgagtttctgaggtttacttggtggctttgctgaaaattatgattgatgttgaattttgatg---ccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTCCTCACTGATGAGTCAGAACTTCAGCAACATCAAAAACTTGAGAAACTTT
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--aatttcttttatttt-ttatgataagtttcaattcatttcttgctcttttttcccctgttctctaatgttccttagttttgcttgcttcctttctatttagGCTGTGCTTAAACAGTTTGGGGCTGGGGGATATGGAGGTTCAGATAATATGGTTACTGATGAGGTAGAGCTTCAGCAACATCAGAAACTTGAGAAGCTTT
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G01100.2 (Glycine max), 3'ss of exon 1
----ctcgtctctatggttatactttttcaaatgtatacgagtttctgaggtttacttggtgg-ctttgctgaaaattatgattgat-gttgaattttgatgccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTCCTCACTGATGAGTCAGAACTTCAGCAACATCAAAAACTTGAGAAACTTT
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tttgttattttttatgataagattcaattcattttttgc-----tccttgttttatttcctgttctctaatgttcctcagttttgcttgcttcctttctat-tcagGCTGTGCTTAAACAGTTTGGGGCTGGGGGATATGGAGGATCAGATAATATGGTTACTGATGAGGTAGAGCTTCAGCAACATCAGAAACTTGAGAAGCTTT
upper sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G01120.3 (Glycine max), 3'ss of exon 1
-------------------ctcgtctctatggttatactttttcaaatgtatacg---agtttctgaggtttacttggtggctttgctgaaaattatgattgatgttgaattttgatg-------------ccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTCCTCACTGATGAGTCAGAACTTCAGCAACATCAAAAACTTGAGAAACTTT
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gtacttaactacttatcctctcgtctctataacgaaatttcttttattttttatgataagtttcaattcatttcttgctcttttttcccctgttctctaatgttccttagttttgcttgcttcctttctatttagGCTGTGCTTAAACAGTTTGGGGCTGGGGGATATGGAGGTTCAGATAATATGGTTACTGATGAGGTAGAGCTTCAGCAACATCAGAAACTTGAGAAGCTTTMapped 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|77585677|gb|DV221928.1|DV221928EST: TCAGGAAGCAAGCCACAAAGATTATAGACCAGGTCGCAAAGCAACAGCAG GCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTC
genomic: TCAGGAAGCAAGCCACAAAGATTATAGACCAGGTCGCAAAGCAACAGCAGgtattaaaga ... ttgatgccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTC
EST:
gi|161714010|gb|FC064085.1|FC064085EST: TCAGGAAGCAAGCCACAAAGATTATAGACCAGGTCGCAAAGCAACAGCAG GCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTC
genomic: TCAGGAAGCAAGCCACAAAGATTATAGACCAGGTCGCAAAGCAACAGCAGgtattaaaga ... ttgatgccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttacttggtggctttgctgaaaattatgattgatgttgaattttgatgccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTCCTCACTGATGAGTCAGAACTTCAGCAACATCAAAAACTTGAGAAACTTT
ttttgat putative branch site (score: 4)
aaaattatgattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcgtctctatggttatactttttcaaatgtatacgagtttctgaggtttacttggtggctttgctgaaaattatgattgatgttgaattttgatgccagGCTGTTCTCAAGCAGTTTTCTGGTGGTGGTTATGGTGGCCCAGATAATGTCCTCACTGATGAGTCAGAACTTCAGCAACATCAAAAACTTGAGAAACTTT
- - -ctctatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatta