Sequence
atgc intronic sequence ATGC exonic sequencegtaggactgcgttccagatcatgtatctaatgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g02170.1 (Oryza sativa), 3'ss of exon 4
gtaggactgcgttccagatcatgtatctaatgaaatgctgaacatct----tggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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gtatgaaaaaacttcagaa-----attctgctggacgctgaacatctgaactagtttctgtcgctcatattactctaaacggttgatattctct-------tccaacttgacagGTTTAGCTGCTCCAGCAATTGCTGCAGGGTTTGGTGCTCTTGCTCCAACCCTGGGCACACTTGTCCCTGTTATAGGAGCTAGCGGATTTGCTGCTATGGC
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G07870.1 (Glycine max), 3'ss of exon 3
gtaggactgcgttccagatcatgtatctaatgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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----gtgtgaataccttaacatcttttctgtgttctg--gaatatataatttcaaattggatgagtttc-cttgttgatttgattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATTCCTGTAATTGGAGCAAATGAATTTGCTGCAGCTGC
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G24310.1 (Glycine max), 3'ss of exon 4
gta-ggactgcgttccagatcatgtat-ctaa-tgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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gtatggattggagaccttgttgtcttttctaactgtattgtggaacatataatttccagatgaataaacttttactg--gatatgattgtttttattttaacc-attcaacagGGTTAGCTGCACCAGCCATTGCTGCAGGTCTTGGTGCTTTAGCTCCAACTTTGGGTACTCTGATCCCTGTAATTGGTGCAAGTGGGTTTGCTGCAGCTGC
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA01G37420.1 (Glycine max), 3'ss of exon 4
gtaggactgcgttccagatcatgtatctaatgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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gtatgaatacctt----aacatcttttctgtgttctg--gaatatatgatttcaaattggatgagtttc-cttgttgatttaattgtttttgtttttatgcatttaacagGATTAGCTGCCCCAGCAATTGCTGCAGGGCTTGGTGCTTTGGCTCCAACCTTGGGTACTCTGATCCCCGTAATTGGAGCAAGTGGATTTGCTGCAGCTGC
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G05680.1 (Glycine max), 3'ss of exon 4
gta-ggactgcgttccagatcatgtat-ctaa-tgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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gtatggattggagaccttgttgtcttttctaactgtattgtggaatatataattttcagatgaataaatttttactg--aatagaattgttttttattttaacctttcaacagGGTTAGCTGCACCAGCCATTGCTGCAGGTCTTGGTGCATTAGCTCCAACTTTGGGTACTCTGATCCCTGTAATTGGTGCAAGTGGATTTGCTGCGGCTGC
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: AT4G36210.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaggactgcgttccagatcatgtatctaatgaaatgc-tgaacatcttggcatcatttggacacactac-accaggtgattcatat-gctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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--------------------gtacggcaaattcaaagcgttaacattctaa----attagagcatattttgaactggttacctatcttacatttacatggttatattcaacagGATTGGCTGCTCCAGCTATAGCTGCAGGATTTGGTGCATTGGCACCAACACTGGGCACAATTATTCCGGTGATTGGAGCTGGGGGTTTTGCTGCTGCGGC
upper sequence: GRMZM2G092776_T07 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0023g02940.t01 (Vitis vinifera), 3'ss of exon 4
gtaggactgcgttccagatcatgtatctaatgaaatgctgaacatcttggcatca--tttggaca-cactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
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--------gcaa-ccatagta-ggacgtagt-aaatatgaaatttctcttcaaaagcttcagacagcatgactgtttttgacttttcagttc--atttttcactcttcaacagGTTTGGCTGCTCCAGCAATTGCTGCAGGATTTAGTGCATTAGCTCCTACTCTAGGCACAATAATTCCGGTGATTGGAGCAAGTGGGTTTGCAGCAGCTGCMapped 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|211223579|gb|FL165161.1|FL165161EST: GAGATCGCATTGGCTATTACTGGGG GTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACAC
genomic: GAGATCGCATTGGCTATTACTGGGGgtaggactgc ... gacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
ctctaat putative branch site (score: 3)
ttctcttcg CT-rich tract
attcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggactgcgttccagatcatgtatctaatgaaatgctgaacatcttggcatcatttggacacactacaccaggtgattcatatgctctaattctcttcgacccgacagGTTTAGCTGCACCAGCCATTGCTGCAGGATTTGGTGCTCTAGCTCCAACACTGGGCACACTTGTCCCTTTCATAGGGGCTAGTGGATTTGCTGCTATGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT