Sequence
atgc intronic sequence ATGC exonic sequenceAACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaatctcttaaccatcttttttgcattattgtcctgcataaagtatgagctaccgtgatgctataaccttgtctttttggtattggttttctta...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G37370.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G37370.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g08600.1 (Oryza sativa), 5'ss of exon 2
AACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaat--ctcttaaccatcttttttgcattattgtcctgcataaagtatgagctaccgtgatgctata-accttgtctttttggtattggttttctta
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CACTGCATTCTGTCTCCTCTACAAGTTCTTCACCATGAAGCTTACTGTCAAACAGATGCATGGTTTGTTGAAGCATCCTGATTCCCCATACATTAGAGCTgtaagttctttgcccctattaacttttatcacact-ttattagatttaagattaatgcatgctttctgttgtttatcaagttttattggagt--gcaatgata
upper sequence: AT5G37370.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G092258_T04 (Zea mays), 5'ss of exon 2
AACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtg--aatctcttaaccatcttttttgcattattgtcctgcataaagtatgagc-taccgtgatgctataaccttgtctttttggtattggttttctta
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CACTGCATTCTGTCTTCTATACAAGTTCTTTACCATGAAGCTTACTGTCAAACAGATGCACGGTTTGTTGAAGCATCCTGACTCCCCACACATTAGAGCTgtaagtttctgtttcctgcccttctgtttgctgatgctgaatgtcttgcttcatggccctgtatctattcattaggcatgaggttagtgtatgaatctat---
upper sequence: AT5G37370.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA14G39220.1 (Glycine max), 5'ss of exon 2
AACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaatct-cttaaccatcttttttgca--ttattg---tcctgcataaagtatgagctaccgtgatgctataaccttgt-ctttttggtattggttttctta
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AACTGCATTTTGTCTTCTGTACAAGTTTTTTACTATGAAGCTCACCGTCAAGCAAATGCACGGGCTGTTAAAGCACCCCGATTCTCCTTACATAAGAGCGgtgtgtacacgtgcctgacaatgaatatcggactttactgattttctgtttaggggtgaaaacattctgtgttcattatggtatgcttgtttgtgcctga-------
upper sequence: AT5G37370.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G40900.1 (Glycine max), 5'ss of exon 2
AACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaatct-cttaaccatcttttttgcattattgtcctgcataaagtatgagctaccgtgatgctataacc-ttgtctttttggtattggttttctta
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AACTGCATTCTGTCTTCTGTACAAGTTTTTTACTATGAAGCTCACCGTCAAGCAAATGCATGGGCTGTTAAAACACCTCGATTCTCCTTACATAAGAGCGgtatgtaggcgtgcctgacaatgtatatggggctttactgatttatttttttaggagtgaaaacattctgtgttcattatggtatgcttgtttgcgcttg--
upper sequence: AT5G37370.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv04s0043g00270.t01 (Vitis vinifera), 5'ss of exon 2
AACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaatctcttaaccatcttttttgcattattgtcctgcataaagtatgagctaccgtgatgctataaccttgtctttttggtattggtt--ttctta-
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CACAGCATTTTGCCTTCTTTACAAGTTTTTTACAATGAAGCTCACTGTGAAGCAAATGCATGGACTACTAAAGCACCCAGATTCTCCCTATATTAGAGCTgtgagtctagccttcttcagaatttattaatttggtg-cttttaacaattacta-ctttttttttagtttaacttagtatctttg-cattaattaatggtcatMapped 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|116414409|gb|EG457001.1|EG457001EST: AGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCG GTTGGATTCCTATATTTAAGATATGTTGCAGATGCAAAGACGTTGTGGACA
genomic: AGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaat ... gaatgtgcagGTTGGATTCCTATATTTAAGATATGTTGCAGATGCAAAGACGTTGTGGACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACAGCGTATTGTCTTCTCTACAAATTCTTTACCATGAAACTTACAGTGAAGCAGATGCATGGACTGTTAAAGCACACAGATTCTCCTTATATTAGAGCGgtgagtgaatctcttaaccatcttttttgcattattgtcctgcataaagtatgagctaccgtgatgctataaccttgtctttttggtattggttttctta
- - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA