Sequence
atgc intronic sequence ATGC exonic sequenceATTGAAAAACCTTTACAAAAACATGGTGGAAGGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttccctaaattattctaagaatatgctctgacaagcgatattggactttaagttgcagtagagaatattcaactgagttctttagtgttgattcagttaatttacattttagtttcttctatggtggtgaaatgttttttatccttgttacatgttgtggttgtcattgcttacatgttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G22200.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G22200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv12s0178g00020.t01 (Vitis vinifera), 5'ss of exon 5
ATTGAAAAACCTTTACAAAAACATGGTGGAAGGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttccctaaatta---ttctaagaatatgctctgacaagcgatattggactttaagttgcagtagagaatattcaactgagttctttagtgttgattcagttaatttacattttagtttcttctatggtggtgaaatgttttttatccttgttacatgttgtggttgtcattgcttacatgttacag
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ATTGAAAAGCCGTTACAAAGACATGGTGGCAGGCTTGAACACAATGAAAAATATTGTGGTTCATGCTATGGAGCAGAAGTGgtacatttgtttgtctggcactccctaggatttcttagatgatgtgttactaatttttatgtatgtgtcagtaatatttaccatatatgtggactctcaa--------------------------------------------------------------------------------------------
upper sequence: AT1G22200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S54_13V6.1 (Physcomitrella patens), 5'ss of exon 5
ATTGAAAAACCTTTACAAAAACATGGTGGAAGGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttccctaaattattctaagaatatgctctgacaagcgatattggactttaagttgcagtagagaatattcaactgagttctttagtgttgattcagttaatttacattttagtttcttctatggtggtgaaatgttttttatccttgttacatgttgtggttgtcattgcttacatgttacag
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GTCCAGAGGCCGTTGCAAAAGCATGGTGGAAGACTTGAACACAACGAAACATACTGCGGCTCCTGTTTTGGCGCTGCGTCAgtgagtctca-tatgccaacttctttgcgtatttt---aggcagtaatgcgtt----gtt-cagaaaatcattttacatcgttacactctatgtgggtatcgccatcag--------------------------------------------------------------------------------
upper sequence: AT1G22200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ21748 (Selaginella moellendorffii), 5'ss of exon 5
ATTGAAAAACCTTTACAAAAACATGGTGGAAGGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttccctaaattattctaagaatatgctctgacaagcgatattggactttaagttgcagtagagaatattcaactgagttctttagtgttgattcagttaatttacattttagtttcttctatggtggtgaaatgttttttatccttgttacatgttgtggttgtcattgcttacatgttacag
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ATTGATAAACCACTCCAAAAACATGGTGGAAGGCTAGAGCATAACGAAACGTACTGTGGTTCCTGTTTTGGTGCCGAGCAAgtaagc-----taaggtatcgccatatcgtatggctactaact-cgtcctgcttccatcag--------------------------------------------------------------------------------------------------------------------------------
upper sequence: AT1G22200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ06790 (Selaginella moellendorffii), 5'ss of exon 5
ATTGAAAAACCTTTACAAAAACATGGTGGAAGGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttccctaaattattctaagaatatgctctgacaagcgatattggactttaagttgcagtagagaatattcaactgagttctttagtgttgattcagttaatttacattttagtttcttctatggtggtgaaatgttttttatccttgttacatgttgtggttgtcattgcttacatgttacag
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ATTGATAAACCACTCCAAAAACATGGTGGAAGGCTAGAGCATAACGAAACGTACTGTGGTTCCTGTTTTGGTGCCGAGCAAgtaagc-----taaggtatcgccatatcgtatggctactaact-cgtcctgctttcatcag--------------------------------------------------------------------------------------------------------------------------------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|164220493|gb|ES037851.1|ES037851EST: GGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCG TCAGATGATGCTTGTTGTAATTCATGTGAGGAAGTTC
genomic: GGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttcc ... catgttacagTCAGATGATGCTTGTTGTAATTCATGTGAGGAAGTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGAAAAACCTTTACAAAAACATGGTGGAAGGTTGGAACACAATGAAACATACTGTGGTTCCTGTTTTGGAGCAGAAGCGgtaagcttccctaaattattctaagaatatgctctgacaagcgatattggactttaagttgcagtagagaatattcaactgagttctttagtgttgattcagttaatttacattttagtttcttctatggtggtgaaatgttttttatccttgttacatgttgtggttgtcattgcttacatgttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC