Sequence
atgc intronic sequence ATGC exonic sequence...aaaagaactgttaactttcattgacattggtcatgcataataatactttggagattatacgagttgttttctgactaaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G08170.1 (Glycine max), 3'ss of exon 11
aaaagaactgttaactttcattgacattggtcatgcataataatactttggagatta--tacgagttgttttctgac-taaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
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---gatactgagcatttatcttttccttatttcatcccactttttctgcggaggatagttccatatttcatactcgcacttgataaacaagttcttctttcagGTGATCTCAAAAGAATCTGTGAAACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACAAAACACGTATTCAAGATCAATAGACAGTATTTGGCAAATGT
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 12
--------aaaagaactgttaactttcattgacattggtcatgcataataatactttggagattatacgagttgttttctgactaaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
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atgtttccaagaaaaaagatgctgagcat--atcttttacatatttcatcccacttt-----ttctgcgtagcatgctcacacttaaaaa-acaaattcctctttcagGCGATCTCAAAAGAATCTGTGAAACCGATCTGGGGTTGATTTCTCAGTGCTGTCTTACAAAACACGTATTCAAGATCAATAGGCAGTATTTGGCAAATGT
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 12
aaaagaactgttaactttcattgacattggtcatgcataataatactttggagattatacgagttgttttctgac-taaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
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-aagatgcttagcatttctcttgttacctatatttcattcaagtttttctgtggtgaaaattattccatgcttgcattaaagaaacaaactcttcattcagGTGATCTCAAAAGAATCTGCGAAACAGATCTGGGGTTGATTTCTCAATGCTGCCTTACAAAACATGTATTCAAGATCAATAGACAGTACCTGGCTAACGT
upper sequence: Vv11s0016g04620.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G21450.1 (Glycine max), 3'ss of exon 13
aaaagaactgttaactttcattgacattggtcatgcataataatactttggagattata-cgagttgttttctgactaaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
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-aagatgcttagcatttctcttgttacctatatttcgtttcatcttttctgtggtgaaaattatttcatgcctgcattaaagaatcaaactcttcattcagGTGATCTCAAAAGAATCTGCGAAACAGATCTGGGGTTGATTTCTCAATGCTGCCTTACAAAACATGTATTCAAGATCAATAGACAGTACCTGGCTAATGTMapped 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|349828457|gb|FQ417199.1|FQ417199EST: GTTGGAGTTACTCATTGCCATTCTTCCAGACAACAATGGCTCTTTGTATG GTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCT
genomic: GTTGGAGTTACTCATTGCCATTCTTCCAGACAACAATGGCTCTTTGTATGgtatgtagtt ... ctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttggagattatacgagttgttttctgactaaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
gactaaa putative branch site (score: 2)
actaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaagaactgttaactttcattgacattggtcatgcataataatactttggagattatacgagttgttttctgactaaaatttgcatgttctacatttagGTGATTTGAAGCGGATTTGTGACACAGATCTGGGGTTGATTTCTCAGTGCTGTCTTACTAAAAATGTCTACAAGATTAGCAACCAGTACCTGGCAAACGT
aaaagaa
- - - - - - - - - cattgac
- - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgtt