Sequence
atgc intronic sequence ATGC exonic sequence...ttaattcatcaaactaatttttgttttataaaacattaaaaaacagtttttgaaaatacttcctaaaccaagaccttataatttgggggtacaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGGGAGAGCACTCGTGCTTACCAGAGCCCCTCCAAAGATCTCACTACAATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g00840.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G36700.2 (Glycine max), 3'ss of exon 16
-ttaattcatcaaactaatttttgttttataaaacattaaaaaacagtttttgaaaatacttcctaaaccaagaccttataatttgggggtacaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGGGAGAGCACTCGTGCTTACCAGAGCCCCTCCAAAGATCTCACTACAATTA
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tgtaatttg-catactgatacaatctctagtagataagagaacaaaatcttctattttgttttatggaacacaagtgtagtcattagttatgtgtgtacagATGGAGGCTCTAATATCACACAGCTCAAAAAGCTATTATGCATGTGTTGGGGAGAGCACTCATGCATATCAGAGCCCGTCAAAAGACCTGACCGCCATCA
upper sequence: Vv14s0068g00840.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G26170.1 (Glycine max), 3'ss of exon 16
-ttaattcatcaaactaatttttgttttataaaacattaaaaaacagtttttgaaaatacttcctaaaccaagaccttataatttgggggtacaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGGGAGAGCACTCGTGCTTACCAGAGCCCCTCCAAAGATCTCACTACAATTA
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tgtaatttg-catactgatacaatctctagtagataagagaacaaaatcttctattttcttttatgaaacacaagtgtattcattagttatgtgtgtacagATGGAGGCTCTAATATCACACAGCTCAAAAAGCTATTATGCATGTGTTGGGGAGAGCACTCATGCATATCAGAGCCCGTCAAAAGACCTGACCGCCATCA
upper sequence: Vv14s0068g00840.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G36890.1 (Glycine max), 3'ss of exon 16
ttaattcatcaaactaatttttgttttataaaaca--ttaaaaaacagtttttgaaaatacttcc-taaaccaagaccttataatttgggggtacaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGGGAGAGCACTCGTGCTTACCAGAGCCCCTCCAAAGATCTCACTACAATTA
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-tatctaggtgatataaatttgtatctagaaaactgtttaaaaaacaaaaactccattttcttttatggaacacaagtgtattcattggttatctg--cacagATGGAAGCCCTAATATCACACAGCTCAAAAAGCTATTATGCATGTGTTGGGGAAAGCACTCATGCATATCAGAGCCCTTCAAAAGACCTGACAGCCATCAMapped 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|27582123|gb|CB004818.1|CB004818EST: AAGTCTCTCCCTCGCACAATGTCTACCTATCCTCACTGCAACCATCAAAG AAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGG
genomic: AAGTCTCTCCCTCGCACAATGTCTACCTATCCTCACTGCAACCATCAAAGgtaagaagtt ... acaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttgaaaatacttcctaaaccaagaccttataatttgggggtacaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGGGAGAGCACTCGTGCTTACCAGAGCCCCTCCAAAGATCTCACTACAATTA
tcctaaa putative branch site (score: 2)
ttataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaattcatcaaactaatttttgttttataaaacattaaaaaacagtttttgaaaatacttcctaaaccaagaccttataatttgggggtacaattacagAAGGAAGCATTGATCTCAAGGGGTGCTAAAAGCTATTATGCCTGTTTTGGGGAGAGCACTCGTGCTTACCAGAGCCCCTCCAAAGATCTCACTACAATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - aaactaa
- - - - - - - - - - - - - - -aaaacat
- - - - - - - - - - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - -ttgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggggg