Sequence
atgc intronic sequence ATGC exonic sequence...ttgcatgtagtgactccagaggctcagtttgtctggtagaatatgcttccgtgcttgaaataatgtattgacccagtgtttttgatggttgtgggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGATGTGAAGGACAATGGGGTAGCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 12
-----------------------------------------------ttgcatgtagtgactccagaggctcagtttgtctggtagaatatgcttccgtgcttgaaataatgtattgac-ccagtgtttttgatggttg--tgggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGA--TGTGAAGGACAATGGGGTAGCGA
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gtaaagacctttttttttttttagaacaaagaccttctcttgtagcctttcatatctcctctttggcaga-cgacttctctagtttccaccgttctggtttttacagtatcagctcaaagcctgtttgtgtcttgtttaattcttttcagCCACATGGGTTCTTCAACTGCTCGCCGGCGGTCGACGTGCCTCCCGGCTCCTCCGACGCTGACATCAAGGAAGCCGAGTCGCCCAAAGCCATCCAG-AACG-
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 11
------------------------------------ttgcatgtagtga--ctccagaggctcagtttgtctggtagaatatgcttccgtgcttgaaataatgtattgacccagtgtttttgatggttgtggg-tgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGA--TGTGAAGGACAATGGGGTAGCGA
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gtatcagctttactttttttttttcagtatatcctgtcataggcagtgaaccatcgggaccctttgttgcttcttcgcaaagagatggttagcctaactttggtcgtttctaatggctaatgatgtttctgccctgcagCCACATGGATTCTTCAACTGCTCGCCTGCGGTCGACGTGCCTCCCAGCTCGTCCGATGCGGATGTCAAGGAAGCCGAGTCGCCCAAGGCCATCCAGAATA--
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S9_129V6.2 (Physcomitrella patens), 3'ss of exon 6
-----------------------------------------ttgcatgtagtgactccagaggctcagtttgtc------tggtagaatatgcttccgtgctt--gaaataatgtattgacccagtgtttttga-tggttgtg----ggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGATGTGAAGGACA-ATGGGGTAGCGA--
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gttagtgtacctcttgtctatatacccgaaagctagagtccttgaaaaattctacccattggtctgtttctgttgaatcttggataagtagtcttaagtacttctgaagccgtgcactaacatagaaaaattgactggttttgatctggtacagCCACATGGGTTCTTCAATTGCTCACCTGCAATTGATATTCCGCCATACGACTC---AACAGACGAGAACAGTCACAAGGAGACTCCCATGAAAGGAAGCCAGC
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 3'ss of exon 13
--------------------------------------ttgcatgtagt--gactccagaggctcagtttgtctggtagaat-------atgcttccgtgcttgaaataatgtattgacccagtgtttttgatggttgtgggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGATGTGAAGGACAATGGGGTAGCGA----
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gtgagtatgtctgtcgtgtttaaaccttgcactatgcactgca-acagtaagaccttgcttattgaactgtttttaaagaatcttagatacacatgctccattcatctgaaacagtggtataatatggttgcgttgttttgatacagCCACATGGCTTCTTCAACTGCTCACCTGCCATTGACATTCCACCAAATGAT-GCGACT--GATGAGAATGGTCACAA-GGACACAATGAAGGGAGGCCAGTCTGMapped 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|110384772|gb|EC949232.1|EC949232EST: TGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAG CCACATGGGTTCTTCAACTGCTCACTTGCGGTGGACGTCCCCCCGAACGCT
genomic: TGGAAGACTGGCCTGTTATGCCAGTGGAACGCATCGGTTTTATGCTTCAGgtattagcgt ... gtgggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttccgtgcttgaaataatgtattgacccagtgtttttgatggttgtgggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGATGTGAAGGACAATGGGGTAGCGA
ttgaaataatgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcatgtagtgactccagaggctcagtttgtctggtagaatatgcttccgtgcttgaaataatgtattgacccagtgtttttgatggttgtgggtgcagCCACATGGGTTCTTCAACTGCTCACCTGCGGTGGACGTCCCCCCGAACGCTTGTGAATTGGATGGGAAGGACAATGATGTGAAGGACAATGGGGTAGCGA
- gcatgta
- - - - - -gactcca
- - - - - - - - - - - - - - -tgtctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatggt