Sequence
atgc intronic sequence ATGC exonic sequenceGGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttctgtttcttgctcttttcgttgaacctttgatttatgaaccataagcttgtgtaatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G16950.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G312026_T01 (Zea mays), 5'ss of exon 2
GGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttc-tgtttcttgctcttttcgttgaacc--tttgattta-tgaaccataagcttgtgtaatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
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ACGAGTTGCTGGATGGATTGAGTTGTTTCAGGCACTCCATAAGTGTTTGGAGAGTAATGACCTGGATCACATGGAAGGTGCTATGGATGCGATATACAAGgta----------atgtacactcctgtcatactaggggttccatgcattaaaccagtatggtgtaatgtatcttacaatttgctttttcaaaat----gttgct--ttctgatgacag----------------------------------------------------------
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G376731_T01 (Zea mays), 5'ss of exon 2
GGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttc-tgtttcttgctcttttcgttgaacc--tttgattta-tgaaccata-agcttgtgtaatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
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ACGAGTCGCTGGATGGATTGAGTTGTTTCAGGCACTCCATAAGTGTTTGGAGAGTAATGACCTGGATCACATGGAAGGTGCTATGGATGCGATATACAAGgta----------atgtgcacttctgtcatactaggggttccatgcattaaaccagcatgatgtagtatatcttacaatttgcgttctc-aaagtcttgctttccgatgacag----------------------------------------------------------------
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G42960.1 (Glycine max), 5'ss of exon 2
GGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttctgtttcttgc-tcttttcgttgaacctttgatttatgaaccataagcttgtgtaatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
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AGGAGTTGTTGGGTGGCCTGAATTGTTGCAAGCCCTCGTAAGTTGCTTGGATAGTAATGATCTAAATCACATGGAAGGTGCTATGGATGCGTTATCCAAGgtatg----------gtctccattttagagtcaataatgttcttaaattgtagttctggctaa--aatcaaatcttcaaagaaaatgaaagtactttcattatatggattgg-------------------------------------------------------------
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G24040.1 (Glycine max), 5'ss of exon 2
GGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttctgtttcttgc-tcttttcgttgaacctttgatttatgaaccataagcttgtgtaatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
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AGGAGTTGTTGGGTGGCCTGAATTGTTGCAAGCCCTTGTAAATTGCTTGGATAGTAATGATCTAAATCACATGGAAGGTGCAATGGATGCGTTATCTAAGgtatgt----------tctccattttagagtcaataatgtttttaaattgtagttctggctaa--aatcaaatcttcaaagaaaatgaaagtactttcattatatggattgg-------------------------------------------------------------
upper sequence: AT2G16950.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv03s0038g02830.t01 (Vitis vinifera), 5'ss of exon 2
GGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttctgtttcttgctcttttcgttgaacctttgatttatgaaccataagcttgtg-taatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
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GGGAGTTTCTGGATGGCCTGAGCTCTTGCAAACTCTTGCTAATTGCTTGGAAAGTAATGACTTAAATCATATGGAAGGTGCTATGGATGCTTTGTCTAAGgtaggtcccacttttacattgatggtttgttctattcttcgtttc--tga---tctaaagaatgcatttagtgattgtgatgaactgaatgcatagtggt-ggtgt-------------------------------------------------------------------Mapped 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|86068099|gb|DR363856.1|DR363856EST: ACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAG ATTTGTGAGGATATTCCGCATGTCTTGGATACAGAAGTGCCTGGCTTAGCA
genomic: ACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagca ... tatcaatcagATTTGTGAGGATATTCCGCATGTCTTGGATACAGAAGTGCCTGGCTTAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAGTTTCTGGATGGCATGAGCTTTTGCCAGCTCTTGTTACTTGTTTAGACAGTAATGACCTTAATCACATGGATGGTGCTATGGATGCATTGTCAAAGgtatgtagcagctatgtgttctcttttctgtttcttgctcttttcgttgaacctttgatttatgaaccataagcttgtgtaatccaaagttgtgattgttggttttgatgatatatttggagtttttttcaaagtttttctaatatctacatgtcgtattcttatcaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA