Sequence
atgc intronic sequence ATGC exonic sequence...tcttagaagattggttcgtgtatgatcttttttcttcaaccttgtttttcttcttctcagcttcaatcaatttcatattaactcttttcaaaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTGTTGAATTGTTGAGTGGATTTCGAGACTTCTACTGTCAACAACTCGACAATAGTGTGGTGGGAATCC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G04830.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G122935_T01 (Zea mays), 3'ss of exon 6
tcttagaagattggttcgtg-tatgatcttttttcttcaaccttgtttttcttcttctcagcttcaatcaatttcatattaactcttttcaaaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTGTTGAATTGTTGAGTGGATTTCGAGACTTCTACTGTCAACAACTCGACAATAGTGTGGTGGGAATCC
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-tgttggtttttatttattgcttcgaaactgtttagttgattattaacttcagatagatggccatattcaccaacagacttaccaatttttggaaatgcagGCGTCAGCTGAAGCAGACGCATACTTTTGCTTTGTCGAATTGTTGAGTGGCTTTAGAGACAACTATTGCAAGCATCTTGACAATAGCAGCGTGGGTATTC
upper sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G28660.1 (Glycine max), 3'ss of exon 6
tcttagaagattggttcgtgtatgatcttttttcttcaaccttgtttttcttcttctcagcttcaatcaatttcat--attaactcttt-tcaaaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTGTTGAATTGTTGAGTGGATTTCGAGACTTCTACTGTCAACAACTCGACAATAGTGTGGTGGGAATCC
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---taggtggcaatatggtggaataatgtagattcataatactgtcatgtttaattgtattattggttgactctgctcaacagttccctattattatttgcagGCCTCTGCTGAAGCAGATGCATTCTTTTGTTTTGTTGAGCTATTGAGTGGGTTTCGAGATAACTTTGTTCAACAACTCGACAATAGTGTTGTGGGAATCC
upper sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 6
-tcttagaagattggttcgtgtatgat-cttttttcttcaaccttgtttttcttct-tctcagcttcaatcaatttcatattaactcttttcaaaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTGTTGAATTGTTGAGTGGATTTCGAGACTTCTACTGTCAACAACTCGACAATAGTGTGGTGGGAATCC
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atggtggagtaatg-tagattcataatactgtcatgttcctttgtatttctattgtattattggttaactctgctcaacagt--tccctattataatttgcagGCCTTTGCTGAAGCAGATGCATTCTTTTGTTTTGTTGAGCTATTGAGTGGGTTTCGAGATAACTTTGTTCAGCAACTCGACAATAGTGTTGTGGGAATCCMapped 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|164078534|gb|ES212034.1|ES212034EST: AGCACCTATCTTTTATGTATTACCGTAACGACCCTGATGAAGATAGTTCA TCCCATGCTGAAGCAGATGCATTCTTTTGCTTTG
genomic: AGCACCTATCTTTTATGTATT-CCGTAACGACCCTGATGAAGATAGTTCAgtaagtagac ... aaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttcttctcagcttcaatcaatttcatattaactcttttcaaaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTGTTGAATTGTTGAGTGGATTTCGAGACTTCTACTGTCAACAACTCGACAATAGTGTGGTGGGAATCC
tattaac putative branch site (score: 1)
aatttcatattaactc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttagaagattggttcgtgtatgatcttttttcttcaaccttgtttttcttcttctcagcttcaatcaatttcatattaactcttttcaaaatatgcagTCCCATGCTGAAGCAGATGCATTCTTTTGCTTTGTTGAATTGTTGAGTGGATTTCGAGACTTCTACTGTCAACAACTCGACAATAGTGTGGTGGGAATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- -tagaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatcaat