Sequence
atgc intronic sequence ATGC exonic sequence...aattgtatatttagatgatgtattcatgccagctatatgctatacggtgcatttcattttggttcattgactttgtgtggttataccatatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01250.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G096389_T05 (Zea mays), 3'ss of exon 13
-----------------------aattgtatattt--agatgatgtattcatgc---cagctatatgctatacggtgcatt--tcattt--tggttcattg--actttgtgtggttatacc-atatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
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gtgctttctcaatgagtcctttttgtcacatttttcaggattatcccattgtacaagtagttagatccttagaggtgtagtgataacctaacaagcctttgcaattagttgtgatgctatctatcaattttgtagGTTGATGGGTACCTTCACAATGAGGAAGAAACACAATATAAAAAGATTATCTGGGAGGAAATGAACAAAGAGTACCTTGAG
upper sequence: Vv08s0056g01250.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G109651_T01 (Zea mays), 3'ss of exon 14
-----------------------aattgtat-atttag-atgatgtattcatgccagctatatgctatacggtgcatttcattttggttcattgactttg-tgtg--gttata-ccatatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
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gtgctttctcaatgagtcatttttatcatattattcaggattattccattgcacaagtagttagaggtgtcgtgataaccaaacaagcctttgcaccttggtgtgatgctatatctatcaattttgtagGTTGATTGGTACCTTCACAATGAGGAAGAAACACAATATAAAAAGATTATCTGGGAGGAAATGAACAAAGAGTACCTTGAG
upper sequence: Vv08s0056g01250.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AC211913.3_FGT001 (Zea mays), 3'ss of exon 2
-----------------------aattgtatattt--agatgatgtattcatgc---cagctatatgctatacggtgcatt-----tcattttggttcattgactttgt-gtggttatacc-atatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
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gtgctttctcaatgagtcctttttgtcacatttttcaagattatcccattgcacaagtagttatatccttagaggtgtagtgataaccatacaagcctttgcaattagttgtgatgctatctatcaattttatagGCTGATGGGTACCTTCACAATGAGGAAGAAACACAATATAAAAAGATTATCTGGGAGGAAATGAACAAAGAGTACCTTGAG
upper sequence: Vv08s0056g01250.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AC186333.2_FGT006 (Zea mays), 3'ss of exon 2
----------------------aattgtatattt--agatgatgtattcatgc---cagctatatgctatacggtgcatt-----tcattttggttcattgactttgt-gtggttatacc-atatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
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gtgctttctcaatgagtccttttgtcacatttttcaggattatcccattgcacaagtagttatatccttagaggtgtagtgataaccaaacaagtctttgcaattagttgtgatgctatctatcaattttatagGCTGATGGGTACCTTCACAATGAGGAAGAAACACAATATAAAAAGATTATCTGGGAGGAAATGAACAAAGAGTACCTTGAGMapped 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|34542901|gb|CF511133.1|CF511133EST: CTAATGCTGCTGATGAATCGGAAAGCCTTTTTGATATTGATGATGTAGAG GTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATT
genomic: CTAATGCTGGTGATGAATCGGAAAGCCTTTCTGATATTGATGATGTAGAGgtgtgcaaac ... tattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATT
EST:
gi|110724144|gb|EE099716.1|EE099716EST: CTAATGCTGCTGATGAATCGGAAAGCCTTTCTGATATTGATGATGTAGAG GTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATT
genomic: CTAATGCTGGTGATGAATCGGAAAGCCTTTCTGATATTGATGATGTAGAGgtgtgcaaac ... tattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgcatttcattttggttcattgactttgtgtggttataccatatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
cattgac putative branch site (score: 3)
ttataccatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattgtatatttagatgatgtattcatgccagctatatgctatacggtgcatttcattttggttcattgactttgtgtggttataccatatattgtgtagGTTGATGGCTATCTTCACAATGAGAAGGAGAAGCAATTTAAAAAGATTATTTGGGAAGCAATGAACAAGGAGTACCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - -tcatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg