Sequence
atgc intronic sequence ATGC exonic sequence...ctgagagttttattattatatatcttccactgaaattgacttgggagagtttgacatctgtatttgatcttgatttggtgatggaattaacttgatacagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTTGGAGATTCTGGCAATTTTGATGCCATGGGTCTTTTAGCCGCAAGTAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G61780.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G61780.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 5
-ctgagagttttattattatatatcttccactgaaattgacttgggagagtttgacatctgtatttgatcttgatttggtgatggaattaacttgatacagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTTGGAGATTCTGGCAATTTTGATGCCATGGGTCTTTTAGCCGCAAGTAAAG
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gaaaatagaaaaagcataattcccatcccttcctaacatagttaacatattatataatctgtcacgagtaaaccatatatgattttgttg-ctgattgcagATTCCTGGTGCTGCTGAGGCATCCATCAGAAATCTACCTCCATCGGCCATTGGTGACTCTAGCAACTTTAATGCTAGGGCTTTATTAGATGCTAACAAGG
upper sequence: AT5G61780.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 5
ctgagagttttattattatatatcttccactgaaattgacttgggagagtttgacatctgtatttgatcttgatttggtg-atggaattaacttgata-cagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTTGGAGATTCTGGCAATTTTGATGCCATGGGTCTTTTAGCCGCAAGTAAAG
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-ctagaactggatgaaaattggagatgtgtagtgatggtccctggttaatttattgaa-atccctcatctgcgtacaatttatggttttgtggtgatttcagGTTCCCGGTGCTGCTGAGGCATCAATCAGAAATTTACCACCTTCTGCCCTTGGTGACCCTAGTAACTTTGATGCTATGACTTTTTTAAATGCAAACAAGG
upper sequence: AT5G61780.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 5
ctgagagttttat--tattatatatcttccactgaaattgacttgggagagtttgacatctgtatttgatcttgatttggtgatggaattaacttgatacagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTTGGAGATTCTGGCAATTTTGATGCCATGGGTCTTTTAGCCGCAAGTAAAG
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-agaaaatagaaaagcattattcctatcccttcttaacatagtgaacatattatataatctgtcatgagtgaaccatatatgattttgttg-ctgattgcagATTCCTGGTGCTGCTGAGGCATCCATCAGAAATCTACCACCATCGGCCATTGGTGACTCTAGCAACTTTAATGCTAGGGATTTATTACATGCTAACAAGGMapped 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|86069266|gb|DR365023.1|DR365023EST: AACAGCTTGAAGAGCANGCTCAGCAGGAAGGATTTGGTCGTTGGAGCAAG GTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTT
genomic: AACAGCTTGAAGAGCAGGCTCAGCAGGAAGGATTTGGTCGTTGGAGCAAGgttggtgtct ... cttgatacagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagtttgacatctgtatttgatcttgatttggtgatggaattaacttgatacagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTTGGAGATTCTGGCAATTTTGATGCCATGGGTCTTTTAGCCGCAAGTAAAG
aattaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgagagttttattattatatatcttccactgaaattgacttgggagagtttgacatctgtatttgatcttgatttggtgatggaattaacttgatacagGTTCCTGGTGCTGCTGAGGCATCTATCAGAAATCTTCCTCCTTCTGCCGTTGGAGATTCTGGCAATTTTGATGCCATGGGTCTTTTAGCCGCAAGTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - -ctgaaat
- - - - - - - - - - - - - - - - - - - - - - - -agtttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatttgg