Sequence
atgc intronic sequence ATGC exonic sequencegtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os11g06010.1 (Oryza sativa), 3'ss of exon 6
-----------------------gtaactcatctttcttcctttcttcctcacttttttgaggacatttta-ctatattgagatactgattatgtcctctaatctactg-------atgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtatcctctaatgaatctttctggttttaaataactttcatggtaatttgcactttatatagcatatttgaacttaagagcaatttttgcaatgttgacttgttaattgtgatcgcatttttttcaacagTGTAGCATCGATGCCTTGCTGGAGAAGACAGTTAAGCACATGCTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAAGCTCAAGGATTCTACTGAATCCA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g06330.1 (Oryza sativa), 3'ss of exon 6
--------------------gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcct---ctaat--cta--ctgatgtggttt---aacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtatcctcttgttcaccctcacactttaaatgtcctttatgattatttagatcttgaatcccattgaatttagtttggatgtaaattctgttgtgtgctgatggctagcctcatgtcaattgccaacagTGTAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G158281_T01 (Zea mays), 3'ss of exon 6
gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatat---tgagatactgattatgtcctctaatctactgatg----------tggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gta--tgctcttgcatgaattctctgatgataatttgaaagt-ttgaatcatatatctgatctacaaactacctacagcagtgtactaacaattgcacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G069408_T01 (Zea mays), 3'ss of exon 6
--------------------------------gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcctctaatctactgatgtggttt---aacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtatcctcttcttctactcacgcatttcaaacgtgttttagtaatttagggttatttaatgttcaattgcacttgtttcaaacttcatacacttgtacgatgactgttagtctcacagcattttttgtcaacagTGTAGTATTGATGCATTACTGGAGAAGACCATTAAGCACATGCTTTTCTTGCAAAGTGTGACAAAGCATGCAGATAACCTCAAGGACTCAAACAAATCTG
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G31460.2 (Glycine max), 3'ss of exon 9
gtaactcatctttcttcctttcttcctcacttttttga------ggacattttactatattgagatactgattatgtc-ctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtatttccttgtttattctttcattcctaattttttggtaatttaaatatcttgttctgtcactgagttgtttttttttctttgatctctttttatgacttgacagTGTAGCATAGATGCACTTTTGGAACGGACCATTAAGCATATGCTTTTCTTACAAAGTGTGACAAAGCATGCTGACAAGCTGAAACAAACAGGGGAGTCTA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G18290.1 (Glycine max), 3'ss of exon 7
----gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtatatagcttttcttgtgcttttcctacatctcagtcctgaacttatatt-taacatttgaatactaactattttctttaatctcttgttacaattcaacagTGTAGCATAGATGCACTTCTGGAAAAGACCATCAAGCATATGCTTTTCCTGCAAAGTGTAACAAAGCATGCTGACAAGCTGAAACAGACAGGGGAGTCTA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G09990.1 (Glycine max), 3'ss of exon 1
gtaactcatctttctt---cctttcttcctcacttttttgaggacattttactatattgagatactga--ttatgtcctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtatgtagcctttcttgtgctttcctatatctcagtcctgaacatatatttc-acattgggatactgactttattttctttaatctcttattacaattcaacagTGTAGCATAGATGCACTTCTGGAAAAGACCATCAAGCATATGCTTTTCCTGCAAAGTGTAACAAAGCATGCTGACAAGCTGAAACAGACAGGGGAATCTA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G27230.2 (Arabidopsis thaliana), 3'ss of exon 5
gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
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gtaagtgaaaaacttatctgttcttggcaaatt-----aaacaatcc-ctaagaaaggttattactaacaaagagta-catgtggtttttatttaacagTGTAGCATTGATGCACTCCTTGAACGTACAATCAAGCACATGCTCTTCTTGCAAAATGTCTCCAAGCATTCTGATAAGCTGAAGCAAACCGGGGAATCCAMapped 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|294965489|gb|GW839060.1|GW839060EST: CCAAGATCGTGTGAAAGAGTTACGCGAAATTGTACCCAAATGGGGCAAAG TGTAGCATTGATGCACTGCTTGAACGCACCATCCAGCATATGCTTTTCTTG
genomic: CCAAGATCGTGTGAAAGAGTTACGCGAAATTGTACC-AAATGGGGCAAAGgtaactcatc ... ggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttactatattgagatactgattatgtcctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
tactgat putative branch site (score: 2)
tatattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcctctaatctactgatgtggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA