Sequence
atgc intronic sequence ATGC exonic sequenceGTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21050.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttaccctttta-accccatcaccattcacatatcctaagggtataactggaattacagagta----atgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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GTCGATGGAGTGAAGCACTCGGGCCCTACAAAGATGGTCCTCTACTTCACCGGGGCCACAAACATTCTCTACACCTTCGGTGGGCACGCTGTTACTGTgtaagccgacaaacgctctctattctatgcccctgtgtcaaaaggaatactgcacgaaatggtctcagtcacatgccacaccgtagagagtaccgtaggc------------------------------
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G149481_T04 (Zea mays), 5'ss of exon 4
--GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcaca-tatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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AGGTTGATGGCGTGAAGCACTCCGGGCCGACCAAGATGGTGCTCTACTTCACCGGGGCCACAAACATTCTCTACACTTTCGGAGGGCACGCTGTTACCGTgtaaggagacaaaacacctttctttcttttttata--tatgcatggtccccggaacaaagaagaagaaataacgcatcacaactgggaccaacgaaag-catt-----------------------
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G149481_T02 (Zea mays), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcaca-tatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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GTTGATGGCGTGAAGCACTCCGGGCCGACCAAGATGGTGCTCTACTTCACCGGGGCCACAAACATTCTCTACACTTTCGGAGGGCACGCTGTTACCGTgtaaggagacaaaacacctttctttcttttttata--tatgcatggtccccggaacaaagaagaagaaataacgcatcacaactgggaccaacgaaag-catt-----------------------
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G03490.1 (Glycine max), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcac-cattcacatatcc-taagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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ATGGAAGGAGTTAAGCATTCGGGTCCGACCAAATTGGTTCTATATTTTACGGGGGCCACAAACATTCTCTACACATTCGGGGGACATGCTGTTACTGTgtaaga-caatatcagatatatattcgtgtcttttacgttttcgcaaatttgcctgtgtttatttctctccacttggccttgcctttgaacgaataaacta--------------------------
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G11310.1 (Glycine max), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttc-tcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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ATGGAAGGAGTTAAGCATTCGGGTCCGACCAAATTGGTTCTATATTTTACGGGGGCCACAAACATTCTCTACACATTCGGGGGACATGCTGTTACTGTgtaagacaatctcagatatatattcgtgtcttttacgtt-ttcgcaaattt---gcccatgttt---atttctctccact-----tggcctttgcctttgaacgaataacta--------------
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G00640.1 (Glycine max), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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GTGGAAGGAGTTAAGCATTCGGGCCCGACCAAATTGGTTCTATATTTTACGGGGGCCACAAACATTCTCTACACATTTGGGGGACATGCCGTTACTGTgtaaggctgat----------------atctcatc-tcatatatatatatgatacgtatcttttacgtttt-gacaaattaaagtgccttgtttctttcccccttcttggatt-----ttggc--
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G00690.1 (Glycine max), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagg-gtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag-
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GTGGAGGGGGTTAAGCATTCGGGTCCGACCAAATTGGTTCTATATTTTACGGGGGCCACAAACATTCTCTACACATTTGGGGGACATGCCGTTACTGTgtaaggctgat----------------atctcatc-----tcatatatgatatgatacgtatct---attacgttttgacaaaagtgccttgtttctttcccacttcgt---taggacgcatgcatc
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggta-taactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
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ATGGAAGGAGTGAAACACTCAGGTCCATCCAAGCTGGTGCTATACTTCACAGGGGCTACAAACATTCTCTACACATTCGGGGGACATGCTGTGACTGTgtaaga-cactgcccttaacttaccaaatggt----ccatgtttttattatagggttaataaatcaga--agagggcagcgcccttaagc-ccctttgaaaatgactg------------------
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S211_67V6.1 (Physcomitrella patens), 5'ss of exon 5
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctctttttttt-acccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccact-cactttcattgtttgtgtgttgtttgttggcag---------------------------------------------------------
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GTTGCCAATGTCGTCCATACGGCGCCGACAACGAAGGTCTTGTACTTCACAGGAGCAACCAACATTCTGTATACTTTCGGTGGCCACGCTGTTACTGTgtaagtaattgacccagggactaggattctcctattgatgttcaagt-tttcagttctcttgtttaatcatgataggaccagtttttatcggtgcacttttcgaatattttttttgtgtacctgcatatttagaccatctaattctgtgaaaggaactttcttggatgtgtatgtcattcgcagMapped 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|164103164|gb|ES081431.1|ES081431EST: GTGGACATGCTGTTACTGT AGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCT
genomic: GTGGACATGCTGTTACTGTgtatgttctc ... ttgttggcagAGAGATAATGCATGCTATGTGGAAACCTCAGAAGTTCAAGTCCATATACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAGCTGGTTTTATACTTCACAGGGGCCACAAACATTCTTTACACATTCGGTGGACATGCTGTTACTGTgtatgttctcttttttttacccttttaaccccatcaccattcacatatcctaagggtataactggaattacagagtaatgaaaatgaccactcactttcattgtttgtgtgttgtttgttggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT