Sequence
atgc intronic sequence ATGC exonic sequenceGCCGTGGGATTCAGCATCCTCTACGTGGTCTCTTCTTAAGAAGTTACCTTGCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaagcatgtagacactattgttgggtttcttcatagcagctgggactcccatggggttcttgcttgtgcttaaattatcttcttagacaaagatccctagtttctttcgacttcatatagaatgttggctattaattaaaatcattttgattcatctagttggtgactcgttttcaaatctctacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G17790.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G17790.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 5'ss of exon 4
GCCGTGGGATTCAGCATCCTCTACGTGGTCTCTTCTTAAGAAGTTACCTTGCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaa-gca-tgtagacactattgttgggtttcttcatagcagctgggactcccatggggttcttgcttgtgcttaaattatcttcttagacaaagatccctagtttctttcgacttcatatagaatgttggctattaattaaaatcattttgattcatctagttggtgactcgttttcaaatctctacag
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GTCGAGGCATCCAACATCCTCTTCGTGGGCTTTTCCTAAGAAGCTACCTATCTCAGATAAGCCGAGACAAACTGCCAGATATTGGTTCCGAGTATGAAGGgtaatgcactccatgccatgctgtttaaatgttcagtaactgaagataaactaatg----tttcatatgtatgtaaaatgttgtcttattctacaa-cattaatt-------------------------------------------------------------------------------------
upper sequence: AT2G17790.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM5G844195_T03 (Zea mays), 5'ss of exon 4
GCCGTGGGATTCAGCATCCTCTACGTGGTCTCTTCTTAAGAAGTTACCTTGCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaa-gcatgtagacactattgttgggtttcttcatagcagctgggactcccatggggttcttgcttgtgcttaaattatcttcttagacaaagatccctagtttctttcgacttcatatagaatgttggctattaattaaaatcattttgattcatctagttggtgactcgttttcaaatctctacag
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GCCGAGGCATTCAACATCCTCTTCGTGGCCTTTTTTTGAGAAGTTACCTTTCTCAAATAAGCAGAGACAAATTGCCTGATATTGGTTCTGAGTACGAAGGgtactgtacctttac-ttaatgccatgatatttcttaaccaaactattttgtttagagtt-tcaatagca-tcatgctatttt-ttggacaagagt---tagcttat----------------------------------------------------------------------------------
upper sequence: AT2G17790.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv04s0023g03870.t01 (Vitis vinifera), 5'ss of exon 4
GCCGTGGGATTCAGCATCCTCTACGTGGTCTCTTCTTAAGAAGTTACCTTGCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaagcatgtagacactattgttgggttt---cttcatagcagctgggactcccatggggttcttgcttgtgcttaaattatcttcttagacaaagatccctagtttctttcgacttcatatagaatgttggctattaattaaaatcattttgattcatctagttggtgactcgttttcaaatctctacag
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GCCGTGGCATCCAACATCCTGTACGTGGCCTCTTCCTAAGGAGTTACCTTTCTCAAGTCAGTAGGGATAAACTACCTGATATTGGTTCTGAATATGAAGGgtaagaaaat-----caattggtgaatttgtgttgcattttgattttatatagtagggagttcatttttgtggctgaaagtaaaactcagtttctggagaccagt--------------------------------------------------------------------------------------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|116486083|gb|EG528675.1|EG528675EST: GCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGG AGATGCTGATACAGTCATAGATGCTGTGGAGTTTGTACTACTGAACTTTAC
genomic: GCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaagcatgt ... atctctacagAGATGCTGATACAGTCATAGATGCTGTGGAGTTTGTACTACTGAACTTTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCGTGGGATTCAGCATCCTCTACGTGGTCTCTTCTTAAGAAGTTACCTTGCGCAGATTAGTCGAGATAAATTACCTGACATTGGTTCTGAGTATGAAGGgtaagcatgtagacactattgttgggtttcttcatagcagctgggactcccatggggttcttgcttgtgcttaaattatcttcttagacaaagatccctagtttctttcgacttcatatagaatgttggctattaattaaaatcattttgattcatctagttggtgactcgttttcaaatctctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT