Sequence
atgc intronic sequence ATGC exonic sequencegtacgttcatcatatattagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G44900.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 8
gtacgttcatcatatattagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
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gtaagtcttctgcatgt-accttttt----tatttctacatct-tattgtagaaagcatgt-tctaattgactatctgcccatgttcagGAGGTCACTGGGATATACACCAACAATTTTGACTTGTCTTTGAATACAAAGAATGGTTTCCCAGTTTTTGCCACAGTAGTGGAGGCAAACTATGTGGCAA
upper sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 8
gtacgttcatcatatattagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
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--gtaatttttcttcacctaccatttgcttttcattt-catat-tactttttgaattagac-tgacattcagtgttg--ctgtctccagGAGGTCACTGGGATATACACAAATAATTTTGACCTGTCTTTGAATACAAAGAATGGTTTCCCTGTTTTTGCCACAGTGGTTGAGGCAAACTATGTGGCAA
upper sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 7
gtacgttcatcatata-ttagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
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gta---tcatcttttactttgactcatcaattttttggccggcccttagttgttatataatgaccttcttaatcattttcttattt-cagGAGGTCACAGGTGTTTATACCAATAATTTTGACTTATCCTTAAACACAAAAAATGGGTTTCCAGTGTTTGCCACTGTTGTTGAGGCAAATTATGTTACGA
upper sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 7
gtacgttcatcatatattagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
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------gtatcatcttttaccttgactcattaattttttgcccttgggtg-ttatagaatgattttcttaatcattttcttattt-cagGAGGTCACAGGTGTTTATACCAATAATTTTGACTTATCCCTTAACACAAAAAATGGGTTTCCAGTGTTTGCCACTGTTGTTGAGGCAAATTATGTTACGAMapped 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|125203973|gb|EL218927.1|EL218927EST: AATGACCTTATTGATTGCGCTCGTCCTGGGGAAGAAATT GAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAG
genomic: AATGACCTTATTGATTGCGCTCGTCCTGGGGAAGAAATTgtacgttcat ... ttttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
ttttttgc CT-rich tract
atttttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttcatcatatattagccttctagaatacttgcacacatgtatatgatcaatcattcatgttatcttgcattggattttttgcagGAGGTTACTGGCATATATACCAACAACTTTGACCTATCTTTGAACACAAAGAATGGGTTTCCAGTCTTTGCCACTGTGGTGGAAGCTAACTATGTTACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG