Sequence
atgc intronic sequence ATGC exonic sequenceGTCTTTATGTGAGTAGGAATACTTACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgtaaagtctttgtctttttctttcttttcttcttcatctgtccaatacagacacatataataatctgcgtcttcttttggaaaatttgttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G21760.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G21760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G12130.1 (Glycine max), 5'ss of exon 6
GTCTTTATGTGAGTAGGAATACTTACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgta-aagtctttgtctttttctttcttttcttcttcatc--tgtccaatacagacacatataataatctgcgtcttcttttggaaaatttgttgcag---
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GTCTTTATGTGAGTAGAAATACTTACATTCGAGCTGGAGTTGCTGAGTGGAAAATCACTAATCCCGTACATGTGgtatgcgtcaatatctacttgtattgctaggaaatagacattcttttttgcttttgttaatctttgttatcatgtcgtcatgtggcatgtgattaactcg
upper sequence: AT1G21760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G42640.1 (Glycine max), 5'ss of exon 6
GTCTTTATGTGAGTAGGAATACTTACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgtaaagtctttgtctttttctttcttttcttcttcatctgtccaatacagacacatataataatctgcgtcttcttttggaaaatttgt-tgcag-------
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GTCTTTATGTGAGTAGAAATACCTACATTCGAGCTGGAGTTGCTGAGTGGAAAATCACTAATCCTGTACATGTGgtagg--catcaatatctacttgtattgctaggtgatagacattctttttttgcttttgttaatctttgttatcgtgtcattaagtggcatgtgattaactc
upper sequence: AT1G21760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g02630.t01 (Vitis vinifera), 5'ss of exon 6
GTCTTTATGTGAGTAGGAATACTTACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgtaaagtctttgtctttttctttcttttcttcttcatctgtccaatacagacacatataataatctgcgtcttcttttggaaaatttgttg--cag-----
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GTCTTTATGTGAGTAGGAACACCTACATTCGTGCTGGAGTTGCAGAGTGGAGAGTTACCAATCCAGTTCATGTGgtatattcctaatctctatgtgaccaacgtggtgcataaaacttataggaat-catgctatgtaaaactcacaggaagtataaatttgataaccgggaacc
upper sequence: AT1G21760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S96_233V6.1 (Physcomitrella patens), 5'ss of exon 5
GTCTTTATGTGAGTAGGAATACTTACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgtaaagtctttgtctttttctttcttttcttcttcatctgtccaatacagacacatataataatctgcgtcttcttttggaaaatttg--ttgcag--------
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GATTATATGTAAGCAGGAATACGTACATTCGTACTGGAATAGCTGAGTGGAAGATTACCAATCCAGTTCATTTGgtgcgtaaatcgtctatgt-ttcccatcctcggtgtcttgcacaaggctgtggtttg-agtg--ctgtttctgctcttgcgtacttgaactagtggggtatgctMapped 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|19875109|gb|AU235940.1|AU235940EST: ACATTCNAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATT GTTTGNTACTACCGNTACATAAGGTTCTACCCTTCTGGC
genomic: ACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgtaaagtctt ... tttgttgcagGTTTGTTACTACCGCTACATAAGGTTCTACCCTTCTGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCTTTATGTGAGTAGGAATACTTACATTCGAGCTGGAATTGCTGAGTGGAAGATTACAAATCCAGTTCACATTgtaaagtctttgtctttttctttcttttcttcttcatctgtccaatacagacacatataataatctgcgtcttcttttggaaaatttgttgcag
- - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - GGAAGA