Sequence
atgc intronic sequence ATGC exonic sequence...ccaaagacattgtttactagctagttttaataggtggttctaaaatttcggtggtttactatattttgaattaaaatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 5
ccaaagacattgtttactagctagttttaataggtggttctaaaatttcggtggtttactatattttgaattaa---aatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG
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-tgatagtcctgttaattttat-gttttgattgttccatatctaatgt-aatgtaattctttaattccaactaatttaggcttactttatctttttggttcagAATGGTTGTTCTGTGGGTTTGGAACTTGATCTTGAGCATTATGTTGTCCCAACTCCCGCAACTGCTGCAAATTCAGCTCATGTATATGCCGCTAACATGA
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 3
ccaaagacattgtttactagctagttttaataggtggttctaaaatttcggtggtttactatattttgaattaa---aatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG
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-tgatagtcctattaattttat-gttttgattgttctatatctaatgt-aatgtaattctttaattccaactaatttaggcttactttatctttttggttcagAATGGTTGTTCTGTGGGTTTGGAACTTGATCTTGAGCATTATGTTGTCCCAACTCCCGCAACTGCTGCAAATTCAGCACATGTATATGCCGCTAACATGA
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 4
ccaaagacattgtttactagctagttttaataggtggttctaaaatttcggtggtttactatattttgaattaaaatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG----------------
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---------ttatatctttgctgataaaaaaaa-----tgtgaaatgtttattgccaaggtttaagtgatttatg--cttactttatatttttggttcagaatggttgttctgtagGTTTGGAACTTGATCTTGAGCATTATGTTGTCCCAACTCCCGCAACTTCAGCAAATTCAGCACATGTATATGCCGCTAACCTGACAGAGAATCCAAGGTC
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------------------ccaaagacattgtttactag----ctagttttaataggtggttctaaa-----atttcggt---ggtttactatattttgaattaaaatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG---
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gtactttgttcttctacttttttgtttctaccgccattctatctatctgtgatgtattagttatgtgaactaaaacaacaggaatgattttctatgcctccaatttcaaagttttgactgcaacgtccatatcaatatagaattcccatggggagaaataaatcttatggactttgatgtctcatagcagTGTCCTTTAGAAAGTTTGGAGCTCGATCTTGCACATTATGAAGTTCCTGCTCCTGCGCCTTCTGCAAACTCGTACCTTGTTTATGCGGCGGACAATGCAGMapped 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|352768929|gb|FQ468120.1|FQ468120EST: GTGGAATTCCTGATGTTAGCATTAATGCTGTCCCCGAGATGGGTGCTGAG AATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGGTCCT
genomic: GTGGAATTCCTGATGTTAGCATTAATGCTGTCCCAGAGATGGGTGCTGAGgtatggatta ... ttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCT
EST:
gi|352764398|gb|FQ472755.1|FQ472755EST: GTGGAATTCCTGATGTTAGCATTAATGCTGTCCCAGAGATGGGTGCTGAG AATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCT
genomic: GTGGAATTCCTGATGTTAGCATTAATGCTGTCCCAGAGATGGGTGCTGAGgtatggatta ... ttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcggtggtttactatattttgaattaaaatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG
tcctgctccatttttt CT-rich tract
tttactatattttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaaagacattgtttactagctagttttaataggtggttctaaaatttcggtggtttactatattttgaattaaaatcctgctccattttttccccacagAATGGCTCTTCAGCAAGCCTGGAGCTTGATCTTGAACATTATGTTGTTCCTGCTCCTGCAACTTCTGCAAATTCAGGTCTGGTTTATGCAGCTAACATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
-caaagac
- - - - - - - - - - - - - - - - ggtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattaaa