Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44270.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44270.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA04G00350.1 (Glycine max), 3'ss of exon 1
gtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
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-------------------------gtaaccttcctttcttttcctcttattttcccctctaactgccaaacaaacat--------ttcactctctctacaattccagGCATTTACTCTCCTAATGCATATCGAGGTTTTGCTCGCGAGTTCATCAAAGATTTGGAGAGAATCAG
upper sequence: AT2G44270.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA04G00350.3 (Glycine max), 3'ss of exon 1
------gtaagtgtacaatc---atcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
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gtatgcttatttcaagaagctcgattacttttccaccgaatgtaaccttcctttcttttcctcttattttcccctctaactgccaaacaaacatttcactctctctacaattc-cagGCATTTACTCTCCTAATGCATATCGAGGTTTTGCTCGCGAGTTCATCAAAGATTTGGAGAGAATCAG
upper sequence: AT2G44270.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA04G00350.2 (Glycine max), 3'ss of exon 1
gtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG---------------------------------
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-------------------------gtaaccttcctttcttttcctcttattttcccctctaactgccaaacaaacat--------ttcactctctctacaattccagGCATTTACTCTCCTAATGCATATCGAGGTTTTGCTCGCGAGTTCATCAAAGATTTGGAGAGAATCAGGTGCTGATTATCCAATTTGCTTGCTTTCTTGTA
upper sequence: AT2G44270.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0001g00440.t01 (Vitis vinifera), 3'ss of exon 7
-gtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
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gatacgtttgca-ctatgggagtgccatg----ttatgcattc-taattttgcttgtctgt--atcactcaatcttattagattttgtactgttgttttacattt-cagGCATTTATTCTCCAAACGCATATCGTGGTTTTGCTCGTGAGTTCATTAAAGATTTGGAAAGGATCAG
upper sequence: AT2G44270.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S54_267V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
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--tgataaaaaaccggcggatgttacca---ctcatttgcgttgaagtctatgtctattctggggatcattgatttttatcagt-atgtgcgtttcct--gttttcagGCACTTATTCTCCAAATGCTTATCGAGGGTTCGCACGTGAGTTCATTAAAGATCTCGAAGCTATCAGMapped 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|124951429|gb|EL026798.1|EL026798EST: CTTATTTCAAGAAGCTGGATTACTTCTCCACTGAAT GCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAG
genomic: CTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtac ... gagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
cttatttttttttttt CT-rich tract
ttatttttatggctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAGATTTGGAAAGAATAAG
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