Sequence
atgc intronic sequence ATGC exonic sequenceGTGATTTTTGTTCCACCAGCACCGTTACATCCTCATATTTACAGCAATGGACATATTTGTTTAGgtaattttactcattgtttctacactacttactctttgcatttgctcttactttttggtttctctgaaatgctagctcaagtcatgtgtgtgtcaatcaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G42990.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G42990.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 5'ss of exon 4
GTGATTTTTGTTCCACCAGCACCGTTACATCCTCATATTTACAGCAATGGACATATTTGTTTAGgtaattttactcattgtttctacactacttactctttgcatttgctcttactttttggtttctctgaaatgctagctcaagtcatgtgtgtgtcaatcaa---
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GTCATATTTCTTCATCCAGCGCCAATGCATCCGCACATTTACAGCAATGGGCATATCTGTTTAGgtaaaatgattgtatgctcctat-tgatgcataaataattgttgttttcgttctt--gatgcttttgcccactccattaattctcttgggtgtacagcatttt
upper sequence: AT5G42990.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G116840_T06 (Zea mays), 5'ss of exon 2
GTGATTTTTGTTCCACCAGCACCGTTACATCCTCATATTTACAGCAATGGACATATTTGTTTAGgta---attttactcattgtttctacactacttactctttgcatttgctcttactt-tttggtttctctgaaatgctagct-caagtcatgtgtgtgtcaatcaa
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GTTATATTTCTGCATCCAGCACCGATGCATCCACACATTTACAGCAATGGACACATCTGTTTAGgtattcactgtttccacttattgaccaactcttgtgttttaagttaaccagcactaatgcagtttcgtccatgagctggtcaccattgttgtctactctg-----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|124923748|gb|EL001907.1|EL001907EST: ACCAGCACCGTTACATCCTCATATTTACAGCAATGGACATATTTGTTTAG ATATTCTGTATGACTCATGGTTTCCAGCAATGACAGTG
genomic: ACCAGCACCGTTACATCCTCATATTTACAGCAATGGACATATTTGTTTAGgtaattttac ... ctttttgtagATATTCTGTATGACTCATGGTCTCCAGCAATGACAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGATTTTTGTTCCACCAGCACCGTTACATCCTCATATTTACAGCAATGGACATATTTGTTTAGgtaattttactcattgtttctacactacttactctttgcatttgctcttactttttggtttctctgaaatgctagctcaagtcatgtgtgtgtcaatcaa
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctcttac