Sequence
atgc intronic sequence ATGC exonic sequencegttggtttggttcatttatatataagcttccaagataagtttgcggattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G32640.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os08g32630.5 (Oryza sativa), 3'ss of exon 10
gttggtttggttcat-ttatatataagcttccaagataagtttgcggattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
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-----------gcatgccatttctctgcttcggaagcctgttggctg--tacccatttctcccccttaactagtaacgcccttcactgctttgcacttcagGTTGGTGATGCTAGTGGAATCCAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACAAGGCATCTTGGTCGTTTGTCAAATG
upper sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM5G851815_T02 (Zea mays), 3'ss of exon 11
gttggtttggttcatttatatataagcttccaagataagtttgcggattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
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-----------------gcatgtgattttctcttaacagaagccttattactcctgcacctg--caagtattctcaatcactgatgctcttgcatttcagGTTGGCGATGCTAGTGGAATACAGTCACCTGTTTCTTTTGGAGGTTTTGGAAGCTTGACGAGACATCTTGGCCGTTTGTCTAGTG
upper sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA14G05100.1 (Glycine max), 3'ss of exon 12
gttggtttggttcatttatatataagcttccaagataagtttgcggattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
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gtaaattgcgttttacacttctgaagcctctataa--aattaagccatctatgatct-atcaactaat--attaaagtaatgaagcttcattctctgtagTTTGGTGATGCTAGTGGCATACAATCACCTGTTTCATTTGGTGGATTTGGAAGCTTGACCAGGCACCTGGGGAGACTGTCAGCTG
upper sequence: AT2G32640.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv12s0059g01150.t01 (Vitis vinifera), 3'ss of exon 11
gttggtttggttcatttatat-ataagcttccaagataagtttgcggattgataatt-tgataaactaaat--aatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
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----------gtgttttacattatatacttctaa----agcct-ccaatagataatggtcacatatcaaatggaatggaagtgttacaaaatcattctctgcagTTTGGTGATGCTAGCGGCATACAGTCACCAGTTTCATTTGGTGGTTTTGGGAGCTTGACCAGGCACCTTGAGAGGTTGTCAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
tacttac putative branch site (score: 1)
ttttttactc putative PPT
ataaactaaataatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtttggttcatttatatataagcttccaagataagtttgcggattgataatttgataaactaaataatcaaagttacttacaaattttttactcagTTTGGTGATGCTAGCGGTATTCAATCACCTGTTTCATTTGGGGGTTTTGGAAGTTTGACCAGACACCTTGGAAGATTGTCCAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA