Sequence
atgc intronic sequence ATGC exonic sequencegtatatagaaacccataacttctctgtttattgcaactgacaaactaagaccatgggctattaagtcacatcatatgtttcttattcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14360.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14360.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G32470.1 (Glycine max), 3'ss of exon 6
gtatatagaaacccataacttctctgtttattg-caactgaca----------aactaagaccatggg---ctat-taagtcacatcatatgtt---tcttatt-catacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
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gtaatcagaagtt-acaattgatcctcttgttaatgactaaaattattttttccactgttatcatagaaattcatataaaccaatttttggcttaaattttgtcatgtgcagGAACTATGGCAAAGGAGAGTTGAGAAGTACTGGGATCTCTTGAGTCCAAAAATCACATCAAACACATTGAGGAATATTATGGATATGAAAGCAAACATGG
upper sequence: AT4G14360.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G35120.4 (Glycine max), 3'ss of exon 6
--------------------------------gtatatagaaacccataacttctctgtt--tattgcaactg-acaaactaagaccatgggct-------attaagtcacatcatatgtttcttattcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
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gtaatcagaaattacaattgatcctcatgttaacgactaaaattaatttttccccctgttagcatagaaattttgtataacaaaaatataattttagatgaaccaatttttggcttaaattttgtcatc-tgcagGAACTATGGCAAAGGAGAGTTGAGAAGTACTGGGATCTCTTGAGTTCAAAAATCACATCAAACACATTGAGGAATATTATGGATATGAAAGCAAACATGG
upper sequence: AT4G14360.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------gtatatagaaacccataacttctctgtttattgcaactgacaaactaagaccatgggctattaagtcacatcatatgtttc--ttattcata---cagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
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gtaatccatggcaaaatctctttgtttatgcatgcatacgtcacattttctgccggggca-cacataaacacaaatacaaggtcacaagaacttcttgtatgattagattgatcgtgttgcagGAAGTTTGGCAACAAAGGGTTGACAATTACTGGAATATTTTGGGTGCAAAGATCAACCCTGATACTTTGAGGAACTTGATGGACATGAAAGCAAGCATGG
upper sequence: AT4G14360.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv05s0049g01180.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------gtatatagaaacccataacttctctgtttattgcaactg-----acaaac-taagac-catgggctattaagtcacatcatatgtttcttat-tcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
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gtaatttgaggcagtacccccttgtctgcaattttttagtttgtaaagatcctt--tttgttagtgcattgtggatatgtttgcaaatacaacacacacatacaaaagtgtgggcttacaaattgatggtgtggtgcagGAAGTTTGGATGCAGAGGGTTGAGAGTTACTGGAATCTCTTGAGTCCAAAGATTACATCAGACACACTGAGGAACTTGATGGATATGAAAGCAAACTTGGMapped 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|86086086|gb|DR381845.1|DR381845EST: GGCATGTTTGAGAAGGACACG GAACTTT-GAGGGCAGAGAGTAGATACTTATT-GGATCTCTTGAGTCCAAG
genomic: GGCATGTTTGAGAAGGACACGgtatatagaa ... attcatacagGAACTTTGGA-GGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAG
EST:
gi|47831830|gb|CK121514.1|CK121514EST: CCAGACTTGCTGATTTTGGATATTCAACGGGCATGTTTGAGAAGGACACG GAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGA
genomic: CCAGACTTGCTGATTTTGGATATTCAACGGGCATGTTTGAGAAGGACACGgtatatagaa ... attcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGA
EST:
gi|86079584|gb|DR375341.1|DR375341EST: CCAGACTTGCTGATTTTGGATATTCAACGGGCATGTTTGAGAAGGACACG GAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGA
genomic: CCAGACTTGCTGATTTTGGATATTCAACGGGCATGTTTGAGAAGGACACGgtatatagaa ... attcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacaaactaagaccatgggctattaagtcacatcatatgtttcttattcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
aactgac putative branch site (score: 2)
tttcttattc putative PPT
atatgtttcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatagaaacccataacttctctgtttattgcaactgacaaactaagaccatgggctattaagtcacatcatatgtttcttattcatacagGAACTTTGGAGGCAGAGAGTAGATACTTATTGGGATCTCTTGAGTCCAAGAATCGAATCAGATACAGTGAGGAACATAATGGACATGAAAGCAAGCATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG