Sequence
atgc intronic sequence ATGC exonic sequenceTGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattcctacatatttttttgatgaaattcacgcttatcgtttttgattcacatgtttactgttgtcaatttaaacaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G41490.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G41490.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM5G827205_T02 (Zea mays), 5'ss of exon 3
TGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattc---ctacatatttttttgatgaaat--tcacgc-ttatcgtttttg----attcacatgtttactgttgtcaatttaaacaacag-----
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TGGCTTGTTGAATATAATGCAGCATTGACATCCATCTGCTTTATGATTCTTCTTGGATTTGTTGATGATGTTCTTGATGTTCCATGGAGAGTgtatgttgcttgtcagactgcctttctgttcacttaaatagtgatgtgctaccactgttgtgttgttgataaattgaattttggaatgtcctacattgaaacag
upper sequence: AT2G41490.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G137707_T01 (Zea mays), 5'ss of exon 3
TGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattcctaca---tatttttttgatgaaattcacg-----cttat-cgtttttgattcacatgtttactgttgtcaatttaaacaacag--
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TGGCTTGTTGAATATAATGCAGCGTTGGCATCAGTCTGTTTTATGATTCTTCTTGGATTTGTCGATGATGTTCTTGATGTTCCATGGAGAGTgtatgttgcttgtcagacagtcttttttttttctcgaacgcgcaagagacatgcgcattttttcattaagtaggaatagaaaaagatccaaaatggatca
upper sequence: AT2G41490.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G16320.1 (Glycine max), 5'ss of exon 3
TGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattcctacatatttttttgatgaaattcacgcttatcgtttttgattcacatg--tttactgttg--------tcaatttaaacaacag
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TGGCTTGTTGAATACAATGCAGCATTAGCGTGCATTTGTTTCATGACACTGCTAGGATTTGTCGATGATGTCCTTGATGTCCCATGGAGAGTgtaagtatacaagttttcattatttgcttcctggatttgtgcttgttaactaatgttagagtagttttgtttttgattttatgtcgatgtgaagaacag
upper sequence: AT2G41490.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G34640.1 (Glycine max), 5'ss of exon 3
TGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattcctacatatttttttgatgaaattcacgcttatcgtttt---------tgattcacatgtttactgt-tgtcaatttaaacaacag
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TGGCTTGTTGAATACAATGCAGCGCTAGCGTGCATCTGTTTCATGACATTGCTAGGATTTGTTGACGATGTCCTTGATGTCCCATGGAGAGTgtgagtatataagttttcatcatttgcttcctgaatttgtgcttgttaactaatgttagagtagtttcgtttttgactttatgtcaatgtgaagaacag
upper sequence: AT2G41490.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0007g05920.t01 (Vitis vinifera), 5'ss of exon 3
TGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattcctacatatttttttgatgaaattcacgcttatcgtttttgattcacatgtttactgttgtcaatttaaacaacag-----------------------------------------------
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TGGCTTGTTGAGTACAATGCAGCCTTAGCATCCATCTGCTTCATGACCCTGCTTGGATTTGTAGATGATGTTCTTGATATTCCATGGAGAGTgtgagtatttggtcattttcaaaggttttctgatttcctagggtcatatatcttgcagagatatttaatttccactacatagacttttgtagttgtgctgaaatagatccttatgtgactgtaattctgaaaacagMapped 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|124858332|gb|EH942769.1|EH942769EST: TGATGTGCCTTGGAGAGT AAAGCTTGTTCCTGCCATCTTTTGCTACCCTTCCACT
genomic: TGATGTGCCTTGGAGAGTgtaagtccta ... taaacaacagAAAGCTTG-TCCTGCCATCTTTTGCTACCCTTCCACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGCTTGTGGAGTATAATGCAGCACTAGCATCTATTTGCTTCATGATTTTGCTTGGATTTGTAGATGATGTCCTTGATGTGCCTTGGAGAGTgtaagtcctaattcctacatatttttttgatgaaattcacgcttatcgtttttgattcacatgtttactgttgtcaatttaaacaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA