Sequence
atgc intronic sequence ATGC exonic sequence...attttcagataattttgcattgattttacatacttatgatgtgttttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G126435_T02 (Zea mays), 3'ss of exon 10
----attttcagataattttgcattgattttacatacttatgatgtgttttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
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gtcaattttcttctgtttatttgtttatct-acgctgtca-aatttatgcgcactat--tgtatcatgctggtttaatcttgtgaattgcattttttgacacagATGGGCAACAAGGGTGCATTTATTCGCTTCACAGCTCCAGAAATGAAACCAGATATTGTTACTTTCTCAGCTGTG
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G42380.1 (Glycine max), 3'ss of exon 11
attttca-gataattttgcattgattttacatacttatgatgt-gttttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
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gtttgcatggacagtgtgcatggggcatgcttatat-taatatcaaatcattttcccttctatgaagtgtgta-aatgttgatttttcattgcatgctgcagATGGGTAACAAGGGTGCCTTTATTCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTTTCAGCGGTG
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G12440.1 (Glycine max), 3'ss of exon 11
attttcagataattttgcattgattttacatact-tatgatgtgttttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
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-tgcttatattaatatctaatcatttttccttctatgaagtatattttgatgttggtgctaaaatcaacattttg-ttgattttttcattgcatgctgcagaTGGGTAACAAGGGTGCCTTTATTCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG--
upper sequence: Vv12s0142g00720.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G42810.2 (Arabidopsis thaliana), 3'ss of exon 12
attttcagataattttgcattgattttacatacttatgatgtgttttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
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--------gtaactcaga--cactcctgtcttcttatttcaaaacagcacccagttacttgattctttacttaacatggactggta-----ttgttgtagATGGGTAATAAGGGAGCCTTCATTCGTTTTGAAGCTCCTGATATGAAGCCAAACATTGTTACATTCTCAGCAGTGMapped 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|110380672|gb|EC945956.1|EC945956EST: ATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCAG ATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCA
genomic: ATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCAGgtatgtgagg ... gctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
atataac putative branch site (score: 3)
attacatataactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttcagataattttgcattgattttacatacttatgatgtgttttaattatgatgcaagagattacatataacttgggtatgtgattggctgttgcagATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - -tgcattg
- - - - - - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - -gatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgtg