Sequence
atgc intronic sequence ATGC exonic sequencegtatttggccttttacaattggaaaatcattccattttggatttgggtatagatgcatttataatatttaaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 6
gtatttggccttttacaattggaa-aatcatt--ccattttggatttgggtatagatgcatttataat-at-ttaaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
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gtaat--gtcaatcagttttgtagtgatcatctgctattctgaaactaggcatgcg-gtattagcagttatgttgaatgatcccttggggttgtacagAAGAATTCACAAGATGAGATGCATTTCAAGTGCTTACCAAAGTCCAGTGCCATAAAGCTGATAGATTTTGGTAGTACCGCCTTTGATAATCAGGAACATA
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G366935_T09 (Zea mays), 3'ss of exon 6
gtatttggccttttacaattggaa-aatcatt--ccattttggatttgggtatagatgcatttataatatt--taaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
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gtacctattcttacccatttttagtgattatctgctaaatctttactaggcataga-gtatttgcagttttcttgaatgattgcttggggttgtacagAAGAATTCACAAGATGAGATGCATTTCAAGTGCTTGCCACAGTCCAGTGCCATAAAGCTGATAGATTTTGGTAGTACCGCCTTTGATAATCAGGACCATA
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 6
gtatttggccttttacaattggaaaatcattccattt-tggatttgggtatagatgcatttataatatttaaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
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gtatttattatttttggatccaaacataataatgtttgtagactcagttata-atatattta--------agggtaattattggattggtacagAGAATTTCCTCAGATGAAATGCAATTCAGGTGCTTGCCCAAGTCTAGTGCTATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAATCATA
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G32660.2 (Arabidopsis thaliana), 3'ss of exon 7
----------------------------gtatttgg-----ccttttacaattggaaaatcattccattttgga-----tttgggtatagatgcatttataatatttaaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
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gtatctagaactgaaataggttaaggttgggtttgggtacactctctgtagttaaagttttgaaagaaaaagaaaaatcttcaagagtttgtactttt-tgacagtttggtatttgattttaaata-acagAGGAGTGCTGCAAATGAGACACATTTCAGGTGCTTACCAAAGTCAAGCGCCATTAAACTGATTGATTTTGGCAGTACTGTTTGTGATAACCGGATTCATCMapped 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|110378511|gb|EC943648.1|EC943648EST: AAAATATACTTCTTGTATCATCTGAGTGTATAAAGCTTCCTAGCTCCAAG AGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCA
genomic: AAAATATACTTCTTGTATCATCTGAGTGTATAAAGCTTCCTAGCTCCAAGgtatttggcc ... aatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatttgggtatagatgcatttataatatttaaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
tatagatgcatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttggccttttacaattggaaaatcattccattttggatttgggtatagatgcatttataatatttaaataaatgcttggaatggtacagAGGTTTTCTTCCGATGAAACTCACTTCAGGTGCTTGCCAAAGTCGAGTGCAATTAAGCTGATTGATTTTGGTAGTACTGCATATGATAATCAGAACCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT