Sequence
atgc intronic sequence ATGC exonic sequence...catttctttttaatatgaagcttctcaattaggctaaaattgccatctattgcttttcattttccttgattgtgttctatatgctgatttatgttcttagGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTTGCTTCAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g02380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G00500.1 (Glycine max), 3'ss of exon 4
catttctttttaatatgaagcttctcaattaggctaaaattgccatctattgcttttcattttccttgattgtgttctatatgctgatttatgt---tcttagGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTTGCTTCAATG
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-aaaaaaaattattacctttctcatacccacaactagtgtgcacatttatggttttttagtgt--ttcactacagttttcatactaacatatgtaatttttagGTAGCTTGCGGTGGAAATGGTGCAACTACTGTTTCTGCAACAATGCTTTTTGCTTCAATG
upper sequence: Vv06s0009g02380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G50510.1 (Arabidopsis thaliana), 3'ss of exon 5
catttctttttaatatgaagcttctcaattaggcta--aaattgccatctattgcttttcattttccttgattgtgttctatatgctgatttatgttctt--agGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTTGCTTCAATG
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-cttcttatatagagacaaccacgttatttacatttccacacctctatcaatcaatgcatggactttttgctc---ctccatatgcctaaatgttttccttcagGTGGCTACAAGAGGAAACGGTGCAACTACAGTCTCTGCAACGTTGTTTTTCGCTTCAATG
upper sequence: Vv06s0009g02380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ25993 (Selaginella moellendorffii), 3'ss of exon 1
catttctttttaatatgaagcttctcaattaggctaaaattgccatctattgcttttcattttccttgattgtgttctatatgctg-atttatgttcttagGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTTGCTTCAATG----------------------------------------
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----------------------------------------------------gtaagctcttttttctcttgttctccacagttagtgtttttctacgcagCTCGCTCGTGGAGGAAACGGAGCAACCACTGTTTCAGCAACAATGTTTTTTGCTTCAAAGGTAGTTTCTACATTGGAAAAAAGAGGAGCCTTTGGGGAATMapped 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|352786976|gb|FQ476009.1|FQ476009EST: GTCTGGGAACCAAGGCTCAAAAGGCAGCTCGCAGAGATATTGCACATATT GTGGCTACGAGAGGGAATGGTGCAGCTACTGTTTCTGCAACCATGTTTTTG
genomic: GTCTGGGAACCAAGGCTCAAAAGGCAGCTCGCAGAGATATTGCACATATTgtgagtggca ... atgttcttagGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctattgcttttcattttccttgattgtgttctatatgctgatttatgttcttagGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTTGCTTCAATG
tgctgat putative branch site (score: 3)
tgttctt putative PPT
ttttcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catttctttttaatatgaagcttctcaattaggctaaaattgccatctattgcttttcattttccttgattgtgttctatatgctgatttatgttcttagGTGGCTACCAGAGGGAATGGTGCAACTACTGTTTCTGCAACCATGTTTTTTGCTTCAATG
- - - - - - - -tgaagct
- - - - - - - - - - - - - - - - - - -aattgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgctg