Sequence
atgc intronic sequence ATGC exonic sequenceGTTTGTTCGATTCAGTATCGTGTAGTGAAAGCTAGTGCTGATGATGCGTTTTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttttgcttctctgttgatgttttttgtttctttgtttgaagaagctctgttttgattcttgatttgttcttgtatgtttgttttttgaatcatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51570.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51570.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G32990.1 (Glycine max), 5'ss of exon 2
GTTTGTTCGATTCAGTATCGTGTAGTGAAAGCTAGTGCTGATGATGCGTTTTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttttgcttctctgttgatgttttttgtttctttgtttgaagaagctctgttttgattcttgatttgttcttgtatgtttgttttttgaatcatag
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CTGTGTTCGATTCAATACCGAGTGATTAAGGAAAACGCTGATGATGCTTTCTATGAGTTGCAAAACCCTCAGGAGCAGATCCAGGCTTATGTTTTTGATGgtagtgttttg------ttaacgcttcttttttgtacacagttatgccaattttgatttcttgttttaattatgtgttgtgtggcttggttttgtgtttcag
upper sequence: AT5G51570.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G28170.1 (Glycine max), 5'ss of exon 2
GTTTGTTCGATTCAGTATCGTGTAGTGAAAGCTAGTGCTGATGATGCGTTTTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttttgcttctctgttgatgttttttgtttctttgtttgaagaagctctgttttgattcttgatttgt-tcttgtatg-tttgttttttgaatcatag
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CTGTGTTCGATTCAATACCGAGTGATTAAGGAAAACGCTGATGATGCTTTCTATGAGTTGCAAAACCCTCAGGAGCAGATCCAGGCTTATGTTTTTGATGgtactgttttg---ttaatggttcttttttgtatcaattttgattttgatttcttgttttaattgtgacattgtgtgttgtgtggtttggttggtgcttttcag
upper sequence: AT5G51570.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv16s0022g01690.t01 (Vitis vinifera), 5'ss of exon 2
GTTTGTTCGATTCAGTATCGTGTAGTGAAAGCTAGTGCTGATGATGCGTTTTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttttgcttctctgttgatgttttttgtttctttgtttgaagaagctct--gttttgattcttgatttgttcttgtatgtt--tgttttttgaatcatag--------------------
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CTTTGCTCAATCCAATATCGTGTGATTAAAGAAAATGCGGATGATGCCTTTTATGAGTTACAGAACCCCAAAGAGCAGATTCAGGCTTTTGTGTTTGATGgtaacttttgcatggttatctggaaatttttagccatattatgcagtaaattttctggttttttggtttctttcacccttgattcttgatgctattctgatgatgcattttgttgtgtgttgcaag
upper sequence: AT5G51570.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S64_195V6.1 (Physcomitrella patens), 5'ss of exon 2
GTTTGTTCGATTCAGTATCGTGTAGTGAAAGCTAGTGCTGATGATGCGTTTTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttttgcttctctgttgatgttttttgtttctttgtttgaagaagctctgttttgattcttgatttgttcttgtatgtttgttttttgaatcatag---
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GTTTGCTCAATTCAGTATCGTGTAGTTCGTCAGAATGCCGACGATGCTTTTTACGAGCTTCAAAATCCAAAGGAGCAGATCCAGTCTTACGTCTTTGATGgttggtattctgaat-tccattccaatattcggtacttatggttaaatata----atgttaaaccataatttttatcaatatgaactttgatcaccttcttctctMapped 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|19875044|gb|AU235875.1|AU235875EST: TTATGAGCTTCAAAACCCTAAAGAGCANATCCAAGCTTATGTCTTTGATG TGGTTAGGGCTTTGGTCCCAATGATGACGCTTGATGCTCTTTTTGAACAAA
genomic: TTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttt ... tgaatcatagTGGTTAGGGCTTTGGTCCCAATGATGACGCTTGATGCTCTTTTTGAACAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTGTTCGATTCAGTATCGTGTAGTGAAAGCTAGTGCTGATGATGCGTTTTATGAGCTTCAAAACCCTAAAGAGCAGATCCAAGCTTATGTCTTTGATGgtaatttttttgcttctctgttgatgttttttgtttctttgtttgaagaagctctgttttgattcttgatttgttcttgtatgtttgttttttgaatcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT