Sequence
atgc intronic sequence ATGC exonic sequence...aatgagcattaaaattgtgctaaactgggtcttaattaggctcatattaagtcatcttttggactgttttactgactctggataccatttcatattccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g37990.1 (Oryza sativa), 3'ss of exon 3
aatgagcattaaaattgtgctaaactgggtcttaattaggctcatattaagtcatcttttggactgttttactgactctggataccatttcatattccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
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-gtaaggatttg---tgtgagaaacattgtatcg-------tcgtgcaaactcaaacttt---ctgtgtgactgacactgctggacgcatgtttgttcagGTTAGGAACACAAGGACTGTAAATCGTACTGGACAACCAACAGGGTACAAGCTCGTACCTGGTTCAAGCTGTCTTCCACTGGCCCTGCCTGAGGCGAAAT
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os04g04950.1 (Oryza sativa), 3'ss of exon 9
aatgagcattaaaattgtgctaaactgggtcttaattaggctcatattaagtcatcttttggactgttttactgactctgg-ataccatttcatattc------cagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
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--catatgatcaaatattgcgaaaatg-----tcaacggcatcgtacataatgaaactgaggtagtatacatgcacgttgatacactgttttatgcacgttgatcagGTACGGAACACAAGGACTGTAAATCGTACTGGACAACCAACAGGCTACAAGCTCATACCTGGTTCAAACTGTCTTCCGTTGGCCCTGCCTGAGGCGAAAT
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 9
-----------------------------------------------------------------------------------------aatgagcattaaaattgtgctaaactgggtct-taattaggctcatattaagtcatcttttggactgttttactgactctggataccatttcat----attccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
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gtaaggcttgcccactttctagagccgaattcttactatccatgttaataatttcatactttgaaactgaattcatatttgctatggtgaaatagt-tgattatttccttacaatacaccgacaattatatctcaacatatttttttatttaattaattaaatgacaatggttaccatttcattgatgcttcagGTAAGGAACACGAGAATAGGCAATAGAACTGGACAGTTGACAGGCTATAAGTTGGTACCTGGCTCAAACTGCTTACCATTGGCAGGTTCTGAGGCCAAGT
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 9
aatgagcatta-aaattgtgctaaactgggtcttaattaggctcatattaagtcatcttttggactgttttactgactctggataccatttca----tattccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
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-----gctttgtatattgtgttaaaccatgattccaactgctttttttttactttttgagttaattctttgatggagacctgctaatgttttaataatccttcagGTAAGGAACACGAGAACATGCAATAGAACTGGACAGTTGACAGGCTATAAGCTGGTACCTGGCTCTAACTGCTTGCCATTGGCAGGCTCTGAAGCCAAGTMapped 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: AAATGCAAGCTATGCGTGATTGTGATCCATTGTCTGCCCGCCATTGGATT GTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAG
genomic: AAATGCAAGCTATGCGTGATTGTGATCCATTGTCTGCCCGCCATTGGATTgtaagtcatc ... catattccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaagtcatcttttggactgttttactgactctggataccatttcatattccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
tactgac putative branch site (score: 1)
ccatttc putative PPT
atttcatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgagcattaaaattgtgctaaactgggtcttaattaggctcatattaagtcatcttttggactgttttactgactctggataccatttcatattccagGTTAGGAACACAAGAACTGTCAACAGGACTGGACAGCTAACAGGCTACAAGTTAGTACCTGGTTCAAACTGCTTGCCATTAGCTGGTTCTGAGGCCAAGT
- - - -attaaaa
- - - - - - - - - - - - - - - - - - - -gctcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taccatt