Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctcaaaaatcgtttgttttcacttcttgtccaaatcatatgcttagacctctttgtgtttcttttgcatagGCACTCCTGAGTTCATGGCACCAGAATTATATGAGGAGAACTATAATGAACTCATTGACGTATATTCCTTTGGTATGTGCTTTTTGGAGATGATCACCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G58350.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G58350.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G40200.1 (Glycine max), 3'ss of exon 3
-------gtatg-tctcaaaaatcgtt---tgttttcacttcttgtccaaatcatatgcttagacctctttgtgt--------------ttcttttgca-tagGCACTCCTGAGTTCATGGCACCAGAATTATATGAGGAGAACTATAATGAACTCATTGACGTATATTCCTTTGGTATGTGCTTTTTGGAGATGATCACCTC
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gtactcactatgattccaataagtgttgcacacttgcaagtactgtactaagaaactgctactatttattattgtcaaataaaattttctctttttgtgctagGCACTCCTGAGTTCATGGCACCAGAATTGTATGAGGAAGAATACAATGAACTTGCTGATGTATATTCATTTGGCATGTGTGTTCTGGAAATGCTCACATC
upper sequence: AT5G58350.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G38390.1 (Glycine max), 3'ss of exon 2
--------------------gtatgtctcaaa---aatcgtttgttttcacttcttgtc-caaatcatatgcttagacctctttgtgtttcttttgcatagGCACTCCTGAGTTCATGGCACCAGAATTATATGAGGAGAACTATAATGAACTCATTGACGTATATTCCTTTGGTATGTGCTTTTTGGAGATGATCACCTC
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gtactcactttggtttcaataagtgttgcacacttaattacaagtactaagaaactgctactatttttattgtcaattaaatttttcctcttttatgctagGCACCCCTGAGTTCATGGCACCAGAATTGTATGAGGAAGAATACAATGAACTTGCTGATGTATACTCATTTGGCATGTGTGTTTTGGAAATGCTCACATC
upper sequence: AT5G58350.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv06s0004g07920.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------------------------------------------------gtatgtctcaaaaatcgtttgttttcacttcttg----tccaaatcatatg-cttagacctctttgtgtttctt---ttgcatagGCACTCCTGAGTTCATGGCACCAGAATTATATGAGGAGAACTATAATGAACTCATTGACGTATATTCCTTTGGTATGTGCTTTTTGGAGATGATCACCTC
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gtatagtctccatcgttgaggaagaaatcactttatgggatgtctccaaagggcctcatgaagatgctactgaataacttgtataccagtctttttgcgtgtgctttccccctagaaatactggttttctaacttctgttttttattgtttgttgggtggtatagGAACACCGGAGTTCATGGCACCAGAGTTATATGAGGAAAACTACAATGAACTGGTTGATGTCTACTCATTTGGCATGTGTGTATTAGAAATGCTTACATCMapped 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|124763035|gb|EH853165.1|EH853165EST: TGGTCTTGCAAGAATGCTGCGGGACTGCCACTCGGCCCATAGCATCATTG GCACTCCTGAGTTCATGGCACCAGAATTATATGAG
genomic: TGGTCTTGCAAGAATGCTGCGGGACTGCCACTCGGCCCATAGCATCATTGgtatgtctca ... ttttgcatagGCACTCCTGAGTTCATGGCACCAGAATTATATGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcacttcttgtccaaatcatatgcttagacctctttgtgtttcttttgcatagGCACTCCTGAGTTCATGGCACCAGAATTATATGAGGAGAACTATAATGAACTCATTGACGTATATTCCTTTGGTATGTGCTTTTTGGAGATGATCACCTC
cctctttgtgtttctt CT-rich tract
aaatcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctcaaaaatcgtttgttttcacttcttgtccaaatcatatgcttagacctctttgtgtttcttttgcatagGCACTCCTGAGTTCATGGCACCAGAATTATATGAGGAGAACTATAATGAACTCATTGACGTATATTCCTTTGGTATGTGCTTTTTGGAGATGATCACCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG