Sequence
atgc intronic sequence ATGC exonic sequencegtaacatgaccgtccataatcctttctggtatctctgagctttaaggtcttatcaataattattgtcagattctgctttaagcctgtctctgtaaaactggtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04510.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 5
gtaacatgaccgtccataatcctttctggtatctctgagc---tttaaggtcttatcaataattattgtcagattctgctttaagcctgtctctgtaaaactggtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
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----------------------------gtaaatagaagcaatgttgaagctgcttttataagttttcttttatatagtattta-tatatattttttatttttgtattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 5
gtaacatgaccgtccataatcctttctggtatctctgagctttaaggtcttatcaataattattgtcagattctgctttaagcc-tgtctctgtaaaactggtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
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----------------------------gtaaataggagcaatgtgga------agctgctttttttaagttttcttttatatagtatttatatatatattttattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------gtaacatgaccgtccataatcctttctggtatctctgagctttaaggt----cttatcaataattat-----tgtca----gattctgctttaagcctgtctctgtaa-----aactg---gtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
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gtaagactatcatcctgtcattttttgataggtaaatttttctccccattgggacttgaacttccctcccacaaaccctccccatccctttaccacttgaggcaggcctcaagaacggctatcatcctgtcatgatgatgctattttatcaatgactaattaaccaaaaaccatatatttcctgtccagATGATAAGGCTTGTACATTTGTGGGAACTGCTGCTTATGTCCCTCCAGAAGTTCTCAATTCTTCTCCTGCAACGTTTGGMapped 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|164190950|gb|ES069735.1|ES069735EST: GATCACAGTTCTACCTAATGCAGCTTCTG ACGATAAGGCGTGCACTTTTGTCGGGACTGC
genomic: GATCACAGTTCTACCTAATGCAGCTTCTGgtaacatgac ... acgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attattgtcagattctgctttaagcctgtctctgtaaaactggtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
tgtaaaa 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
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gtaacatgaccgtccataatcctttctggtatctctgagctttaaggtcttatcaataattattgtcagattctgctttaagcctgtctctgtaaaactggtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
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