Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcatttctttctcatcttcatctagttatggtgtgatgtgaaaagaaaaaagacagtgagatatatgatagctttagaagaaagcgattaaggggctgttttctaatgatgcagGTGGATGTTGGAAATTTCCTTCGTTTCAAGTCACGCGTATTGTACACAGAAGCAACCAGTTCAGCTGAACCGCTGATAAACATCGAGGTTGTAGCTCATG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G30720.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G30720.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G32710.1 (Glycine max), 3'ss of exon 3
gtgagttcatttctttctcatcttcatctagttatggtgtgatgtgaaaagaaaaaagacagtgagatatatgatagctttagaagaaagcgattaaggggctgttttctaatgatgcagGTGGATGTTGGAAATTTCCTTCGTTTCAAGTCACGCGTATTGTACACAGAAGCAACCAGTTCAGCTGAACCGCTGATAAACATCGAGGTTGTAGCTCATG
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-------------ctatttagcaccttttgataaagtttatatatcaacagaaaaga-acaat------tttattgacatttaaacaggacattcaactgaaaacaacttgatgatgcagGTGGACGTTGGAAATTTCCTTCGTCTCAAGTCTTGTGTTCTGTACACGGAACTTGACAACATAGCTGAACCCCTGGTGAATGTGGAAGTTGTTGCACATG
upper sequence: AT2G30720.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G15770.1 (Glycine max), 3'ss of exon 3
gtgagttcatttctttctcatcttcatctagttatggtgtgatgtgaaaagaaaaaagacagtgagatatatgatagctttagaagaaagcgattaaggggctgttttctaatgatgcagGTGGATGTTGGAAATTTCCTTCGTTTCAAGTCACGCGTATTGTACACAGAAGCAACCAGTTCAGCTGAACCGCTGATAAACATCGAGGTTGTAGCTCATG
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------------atttaacaccttcataaagtt----tat-atgtcaacagaaaattaagaacaat---tgcattgacatttaaacaggacattcaactgaaaacaacttgatgatgcagGTGGAAGTTGGAAATTTCCTTCGTCTCAAGTCTTGTGTTCTGTACACGGAACTGGACAACTTAGCTGAACCCCTGGTGAATGTGGAAGTTGTTGCACATG
upper sequence: AT2G30720.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0094g00930.t01 (Vitis vinifera), 3'ss of exon 3
gtgagttcatttctt--------tctcatcttcatctagttatggtgtgat-gtgaaaagaaaaaagacagtgagatatat---gatagctttagaagaaag-----------cgattaaggggctgttttctaatgatgcagGTGGATGTTGGAAATTTCCTTCGTTTCAAGTCACGCGTATTGTACACAGAAGCAACCAGTTCAGCTGAACCGCTGATAAACATCGAGGTTGTAGCTCATG
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gtgagtacccaccctaaaactggtatcaaattctcctaaaaatggagtaaccgtatcgattgcttaatccttgagctgagcctaaatttttctaggtaaaggtaactacacttcaattggtttgctatttcttgttggcgcagGTGGATGTTGGAAATTTCCTTCGTCTCAAGTCTTGTGTTCTGTATACTGAACTCGAGAACCCAACTCGACCATTGATCAATGTAGAAGTTGTAGCTCATGMapped 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|124832755|gb|EH917194.1|EH917194EST: GGGTTTCACCACGTTTTCTCGAAGTTGATCGCGTCGATTTTATCAAGCCA GTGGATGTTGGAAAT
genomic: GGGTTTCACCACGTTTTCTCGAAGTTGATCGCGTCGATTTTATCAAACCAgtgagttcat ... aatgatgcagGTGGATGTTGGAAAT
EST:
gi|164050827|gb|ES009148.1|ES009148EST: GGTTTCACCACGTTTTCTCGAAGTTGNATCGCGTCGATTTTATCAAACCA GTGGATGTTGGAAATTTCC
genomic: GGTTTCACCACGTTTTCTCGAAGTTG-ATCGCGTCGATTTTATCAAACCAgtgagttcat ... aatgatgcagGTGGATGTTGGAAATTTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatatgatagctttagaagaaagcgattaaggggctgttttctaatgatgcagGTGGATGTTGGAAATTTCCTTCGTTTCAAGTCACGCGTATTGTACACAGAAGCAACCAGTTCAGCTGAACCGCTGATAAACATCGAGGTTGTAGCTCATG
ttctaat putative branch site (score: 2)
ttttcta CT-rich tract
ttttctaat 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
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gtgagttcatttctttctcatcttcatctagttatggtgtgatgtgaaaagaaaaaagacagtgagatatatgatagctttagaagaaagcgattaaggggctgttttctaatgatgcagGTGGATGTTGGAAATTTCCTTCGTTTCAAGTCACGCGTATTGTACACAGAAGCAACCAGTTCAGCTGAACCGCTGATAAACATCGAGGTTGTAGCTCATG
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