Sequence
atgc intronic sequence ATGC exonic sequence...tgattgtacagttattgaagttatatttttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g02990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G11140.1 (Glycine max), 3'ss of exon 2
tgattgtacagttattg--aagttatatttttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
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agagt-tatggttaaaaataaaaaacataatgaaggtatgat-taaaactttcatcctttaaatcctaaagtctagcatttgaactttttttctgatgatagGTAGCACAAGAGTGGCCTGGCTTGCCAAAAGGTGTCAAATTTGATCCATCTGATCAGGAGATCATTTGGCACTTGCTTGCAAAAGTTGGGGTAGGAGATT
upper sequence: Vv01s0011g02990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G34730.1 (Glycine max), 3'ss of exon 1
--tgattgtacagttattgaagttatatttttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
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tttgcttataca--tataagttcaagacttcattcttttgtcccaaagtattgcattcatagttgtagttgttctcttacatttgaaactttatgttgttagGTAGCCCAAGAATGGCCTGGACTACCTTTAGGTGTTAAATTTGATCCATCTGATCAAGAGATAATATGGCACTTGCTTGCAAAAGTTGGTGCTGGAAATT
upper sequence: Vv01s0011g02990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G22510.1 (Glycine max), 3'ss of exon 2
----tgattgtacagttattgaagttatatt-tttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtcct-tttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
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ataatgaaggtatgatta--aaactttcatcctttaaatcatgaagtctagcagttgtat---aggtataaatgtacgga-catttgaacttttttttgtcaatagGTAGCACAAGAGTGGCCTGGCTTACCAAAAGGTGTCAAATTTGATCCATCTGATCAGGAAATAATTTGGCACTTGCTTGCAAAAGTTGGGGTAGGAGATT
upper sequence: Vv01s0011g02990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G32690.1 (Glycine max), 3'ss of exon 2
tgattgtacagttattgaagttatatttttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
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cgtttaaacatatactagttcaaaacttcattcttttgtccccaagtattacatttatagttgtaggtgttctcttacatttgaaacttcatgctgttagGTAGCACAAGAATGGCCTGGACTACCTATTGGTGTTAAATTTGATCCATCTGATCAAGAGATAATTTGGCACTTGCTTGCAAAAGTTGGTGCTGGAAATT
upper sequence: Vv01s0011g02990.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G25580.1 (Arabidopsis thaliana), 3'ss of exon 2
tgattgtacagttattgaagttatatttttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGT-TGGGAATT
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-gtatgtctgctctttcgtttcat-ttgatgtctagtctctcatattatatttcta-----tgttgttgttgtaaacac--aagttttttacatttccagGTTGTTGATGATTGGCCAGGATTGCCTCGAGGTGTGAAATTTGATCCATCTGATCCTGAGATCATATGGCATTTGCTAGCCAAATCTGGTTTGTCAGGGT-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|34543117|gb|CF511349.1|CF511349EST: ATCCTAGTAGAGCTTGCCCGAATTGCCAGCATATAATTGACAATAGTGAT GTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCT
genomic: ATCCTAGTAGAGCTTGCCCAAATTGCCAGCATATAATTGACAATAGTGATgtataatccc ... ccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
tgttaat putative branch site (score: 3)
ctgtcctttt putative PPT
ttaatatttagaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattgtacagttattgaagttatatttttatattatcttgcctgatcttcttctggcagctgttaatatttagaatgtttggaaactgtccttttgcagGTTACTCAGGAGTGGCCAGGATTACCTAGAGGTGTGAAATTTGATCCATCTGATCAGGAGATCATATGGCATTTACTTGCAAAAGTTGGAGTTGGGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgg