Sequence
atgc intronic sequence ATGC exonic sequence...tgtgtatgttctgtgtcggtagaaaaacaataaaaacaaaatatttgaatttagatatgtttgggcctttacacgtttgtgtgtgtgtgtttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05910.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G22210.1 (Glycine max), 3'ss of exon 1
tgtgtatgttctgtgtcggtagaaaaacaataaaaacaaaatatttgaatttagatatgtttgggcctttacacgtttgtgtgtgtgtgtttgttc--acagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
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--cctaaaaaatgcatatatagagccttattattaggtgatagttaagaacttgtagccctttaatttagctaaatatatttcttttcttttgctgtgacagTTTGCTTGGATGGAACATTGCCTGGTTATCATTTGCATCGGGGATATGGATCAGGAGCAAACAGCTGGGTCGTTAATTTAGAG
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G41240.1 (Glycine max), 3'ss of exon 1
---tgtgtatgttctgtgtcggtagaaaaacaataaaaacaaaatatttgaatttagatatgtttgggcctttacacgtttgtgtgtgtgtgtttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
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ttttcggaaaattttggaataggtcgcagtttttaacaataattgagtatactttgcctttaatttggctaaatataattcctttctttggctttg---gcagTCTGCTTGGATGGAACATTGCCTGGTTATCATTGGCATCGGGGATATGGATCAGGAGCAAATAGCTGGCTTATTAATTTAGAG
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G28230.1 (Glycine max), 3'ss of exon 1
tgtgtatgttctgtgtcggtagaaaaacaataa-aaacaaaatatttgaatttagatatgtttgggcct-ttacacgtttgtgtgtgtgtgtttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
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--actaaagaaagcatatatagagccttatttttgggtgatagataagaatttgtagccctttaatttagctaaatatatttcttttctttcgttgtcgcagTTTGCTTGGATGGAACATTGCCTGCTTATCATTTGCATCGGGGATATGGATCAGGAGCAAACAGCTGGATCGTTAATTTAGAG
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G38650.1 (Glycine max), 3'ss of exon 1
tgtgtatgttctgtgtcggtagaaaaacaataaaaacaaaatatttga----atttagatatgtttgggcctttacacgtttgtgtgtg-----tgtgtttg---ttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
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-----------tttttcgg-aaaattggaatacggtcgcagtttttaaccataattgagtatactttgcctttaacttggctaaatataattcctttctttgactttggcagTCTGCTTGGACGGAACATTACCTGGTTATCATTTGCATCGGGGATATGGATCAGGAGCAAATAGCTGGCTTATTAATTTAGAG
upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv14s0060g00230.t01 (Vitis vinifera), 3'ss of exon 1
tgtgtatgttctgtgtcggtagaaaaacaataaaaacaaaatatttgaatttagatatgtttgggcctttacacgtttgtgtgtgt-gtgtttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
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-aattttaatagcagtgacctgagatgcttagtactcagaatcatgaaatctggattccttttggcattaatacatctccttgtatcgtaaatcgttgcagTTTGTTTAGATGGAACATTACCGGGGTATCATTTGCATCGTGGATATGGGTCAGGGGCAAACAGTTGGCTCATTCAATTGGAGMapped 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|124763221|gb|EH853351.1|EH853351EST: AGCTGATTCTGGAGCTG TTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGAT
genomic: AGCTGATTCTGGAGCTGgtactttctc ... ttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatttagatatgtttgggcctttacacgtttgtgtgtgtgtgtttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
tttgttc CT-rich tract
ttagatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgtatgttctgtgtcggtagaaaaacaataaaaacaaaatatttgaatttagatatgtttgggcctttacacgtttgtgtgtgtgtgtttgttcacagTTTGTTTGGATGGAACATTGCCTGGATATCACTTGCACCGTGGACATGGATCTGGAGCTAATAGCTGGCTCATTCAATTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG