Sequence
atgc intronic sequence ATGC exonic sequenceGCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtattatcattattcctttacctgaccaggctcatattaaataccaatgcaactttggtgattgtccatcggctacatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G13300.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 5'ss of exon 14
GCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtatt-----atcattattcctttacctgaccaggct-catattaaataccaatgcaactttg-gtgattgtccatcggctacatttcag
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GCAGAGAGTGCAATAGATCAAATGGATTGGATTGAAAAGATTACTGGTGTCATTGCATCTTTGCTTAGCTCACAATCCCCAGAACAGgtcactattcgatgacccagattttattgtttatgtatttgacatgttgaattttcgtttaccaaaatgtgatggtctgt-acttctgtttcag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GRMZM2G093670_T01 (Zea mays), 5'ss of exon 5
GCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtattatcattattcctttacctgaccaggctcatattaaataccaatgcaactttggtgattgtccatcggctacatttcag
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GCAGAGAGTGCAGTAGATCAGATGGATTGGATTGAAAAGATAACTGGTGTTATTGCCCCTTTGCTGAACTCACAATCCCCAGAACAGgttagta--atggatggtctctgtttggatt--gcatgtcttctggaatattcagtttacaatacttggctgt----tctgtttcag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA18G51810.1 (Glycine max), 5'ss of exon 14
GCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtattatcattattcctttacctgaccaggctcatattaaataccaatgcaactttggtgattgtccatcggctacatttcag
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GCAGAGAGTGCGCTGGACCAAATGGATTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAGATTCCTGATAGGgtaacttccatgaacttttggtgatcgtgtagaaataaaatttaa-gtcaatttgattaatgttgcaatttg-caattgt-tatcag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA08G28890.2 (Glycine max), 5'ss of exon 14
GCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtattatcattattcctttacctgaccaggctcatattaaataccaatgcaactttggtgattgtccatcggctacatttcag
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GCAGAGAGTGCACTGGACCAAATGGACTGGATTGAAAAAATCACTGGTGTTATTGCTTCATTACTGAGTTCTCAAATTCCTGAAAGGgtaacttccaagaa-----cttttggtgatcatgtagaaataaaatttaagt-caatttgattaatgttgcaattgtta----tcag
upper sequence: AT5G13300.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: Vv01s0150g00030.t01 (Vitis vinifera), 5'ss of exon 14
GCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtattatcattattcctttacctgaccaggctcatattaaataccaatgcaactttggtgattgtccatcggctacatttcag
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GCAGAGAGTGCACTGGACCAAATGGATTGGATTGAAAAGATAACAGGGGTTATTGCTTCATTACTGAGTTCTCAGGCTCCTGAGAGGgtaattagtgcagatgtatgcatgactatttagcctttgatttgtggtca------ttttgatgactgt--atccattatatttcagMapped 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|125196003|gb|EL210957.1|EL210957EST: ACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAG CGTCTTCCTGGTAGTCCCATGGGAAGTGGCCACCATCGATCTGCTAGTGAA
genomic: ACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtatta ... tacatttcagCGTCTTCCTGGTAGTCCCATGGGAAGTGGCCACCATCGATCTGCTAGTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTGAGAGTGCACTCGATCAAATGGATTGGATAGAAAAGATCACTGGGGTTATTGCATCACTACTTAGTTCTCAGGTCCCTGAACAGgtaagtattatcattattcctttacctgaccaggctcatattaaataccaatgcaactttggtgattgtccatcggctacatttcag
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