Sequence
atgc intronic sequence ATGC exonic sequencegtgatgtttcttcccttccttttatttttacaaacaaccatgaactagtagtgacgggcacaggtttttaaagcttcattttcagttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G35610.1 (Glycine max), 3'ss of exon 5
----gtgatgtttcttcccttccttttatttttacaaacaaccatga---------actagtagtgacgg-gcacaggtttttaaagcttcattttc-----------------------------------agttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA---------------------------
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gtaattaatgtttattctcctctgtcaatttttgcaaacaaccacgagagtcagtgaatagtactcatggcacgctagatgttaaaagtccattatttcacgttgttctaatccttctgcttccactttattagtttttgaagttctaaaaatattctcttttc------cccgtggatgcagGCCCTTAGCTTACCATACTTGGGCAGTGGATCAGGAAACATGAGACAGCAACAATCCGTAAGAAATAATACCAACCCACCATTTCTG
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G04110.1 (Glycine max), 3'ss of exon 5
gtgatgtttcttcccttccttttatttttacaaacaaccatgaactagtagtgacgggcacaggtttttaaagcttcattttcagttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA
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--------------------------gttagaagt--ccattatttcacgttgtt---ctaatctttct---gcttccactttagtttttgaagttctaaaaatattctcttttcc---ccgtggatgatgcagGCCCTTAGCTTACCATACTTGGGCAGTGGATCAGGAAACATGAGGCACCAACAATCC---
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G04110.2 (Glycine max), 3'ss of exon 5
----gtgatgtttcttcccttcctttt----atttttacaaacaaccatgaa------ctagtagtgacgg-gcacaggtttttaaagcttcatt--------------------------------ttcagttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA
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gtcattaatgtttattctcctcgctctgtcgatttttgcaaacgaccacgagagtcagtgaatagtgatggcacgctagatgttagaagtccattatttcacgttgttctaatctttctgcttccactttagtttttgaagttctaaaaatattctcttttcc---ccgtggatgatgcagGCCCTTAGCTTACCATACTTGGGCAGTGGATCAGGAAACATGAGGCACCAACAATCC---
upper sequence: Vv11s0016g03560.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G09180.3 (Glycine max), 3'ss of exon 4
gtgatgtttcttcccttccttttatttttacaaacaaccatgaactagtagtgacgggcacaggtttttaaagcttcattttcagttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA
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-------------------------tcatgcgaataat--tgaa---gttttcacaattgta--ttcttcgtacatactctttaattattgaagttcctaa-ataccatcttttttt-ccgtcgttggatgcagGCTCTTAGCTTACCATACTTGAGCGGTGGATCAGGGAACACGAGGCAGCAACATTCT---Mapped 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|71871899|gb|DT020954.1|DT020954EST: TCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAG GCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAA
genomic: TCTTGTTAGAAGCTATTGGTTATATCAGATTCCTCCAGAGTCAAATTGAGgtgatgtttc ... taaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcagttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA
tatattcccttctctt CT-rich tract
ttattgaagttctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgtttcttcccttccttttatttttacaaacaaccatgaactagtagtgacgggcacaggtttttaaagcttcattttcagttattgaagttctaaatatattcccttctcttatccccctaaaatgcagGCTCTCAGCTTACCGTACTTGGGCAGTGGATCAGGAAATATGAGGCAGCAACCGTCTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA