Sequence
atgc intronic sequence ATGC exonic sequence...gtgtgattatatgtttgcgcattggcatcattcctagaaatgtgactgtagatgctgctgctgctgctattaattttaatgaacactctaatatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTCCCGGTAAAAGATCTTCTATGGAGGACTTCTATGAAACTAGGATCGACGGCGTTGAAGGGGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G31750.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G31750.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os06g48300.1 (Oryza sativa), 3'ss of exon 1
----gtgtgattat---atgtttgcgcattggcatcattcctagaaatgtgactgtagatgctgctgctgctgctattaattttaatgaacactctaatatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTCCCGGTAAAAGATCTTCTATGGAGGACTTCTATGAAACTAGGATCGACGGCGTTGAAGGGGAA
|||| | | | || | || || | ||| | || |||| | | | ||| | | || | || || || ||| ||||| || || || || |||||||| ||||| |||||||| || |||||||| || ||||||||||||||||| || || || || || || || || ||
gggagtgttagtttcgaatatctgtatatagccattgacagagaattcgtttctgttattattac--ctgatattgttgttcttcttgtgt----tatcatg-acagTGCAAATGGTAAATTTAGCTATGGTTATGCGAGCTCTCCTGGAAAAAGATCCTCCATGGAGGACTTCTATGACACCAGAATTGATGGTGTCGATGGAGAG
upper sequence: AT4G31750.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G166035_T02 (Zea mays), 3'ss of exon 1
------gtgtgattatatgtttgcgcattggcatcattcctagaaatgtgactgtagatgctgctgc-tgctgctattaattttaatgaacactctaatatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTCCCGGTAAAAGATCTTCTATGGAGGACTTCTATGAAACTAGGATCGACGGCGTTGAAGGGGAA
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aattcctcatactgattttctgccctgtatataacagtgcgtgcaatgtcg-tgtgagtccgaatacacacctatttgacacacaacgtttccacctgcagTAATAGTGAAAATGGTCGGTTCAGTTATGGAGTTGCAAGTTCTCCCGGGAAAAGAGCATCGATGGAGGACTTCTATGAGGCAAGGATAGACGACGTTGAC------
upper sequence: AT4G31750.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv04s0008g07320.t01 (Vitis vinifera), 3'ss of exon 2
---gtgtgattata-tgtttgcgcattggcatcattcctagaaatgtgactgtagatgctgctgctgctgctattaattttaatgaacactctaatatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTCCCGGTAAAAGATCTTCTATGGAGGACTTCTATGAAACTAGGATCGACGGCGTTGAAGGGGAA
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ttgaggaccttataatgtttg-gttttatctttctaatatcatctacaacaataagag-tgcacaggatcttcctaacat-agtgtgagatgttgtcta-acagTCATAATGGGAAGTTCAGCTACGGATATGCTAGTTCTCCCGGGAAAAGGTCTTCAATGGAAGATTTTTATGAGACAAGAATTGATGGTGTTGAAGGAGAGMapped 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|164052343|gb|ES045025.1|ES045025EST: TCGAGCCAGGTTCACTCCGACGATGGACCTGTTAGCGGTGGTGGCCTCAG TCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTACCCGG
genomic: TCGAGCCAGGTTCACTCCGACGATGGACCTGTTAGCGGTGGTGGCCTCAGgttcactttt ... atatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCT-CCCGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtagatgctgctgctgctgctattaattttaatgaacactctaatatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTCCCGGTAAAAGATCTTCTATGGAGGACTTCTATGAAACTAGGATCGACGGCGTTGAAGGGGAA
tattaattttaatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgattatatgtttgcgcattggcatcattcctagaaatgtgactgtagatgctgctgctgctgctattaattttaatgaacactctaatatgtacagTCAGAACGGGAAGTTCAGCTATGGATATGCAAGCTCTCCCGGTAAAAGATCTTCTATGGAGGACTTCTATGAAACTAGGATCGACGGCGTTGAAGGGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - -ctagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgaaca