Sequence
atgc intronic sequence ATGC exonic sequencegtatctctcacttacttttccgttcgaatggttactcaggaagataaggcaataatctcaaattgttaaattggtttcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10740.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA19G30450.1 (Glycine max), 3'ss of exon 15
-------gtatctctcacttacttttccgttcgaatggttactcaggaaga---------taaggcaataatctcaaattgt-taaatt---ggtttcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
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aagtaaagtgttttcatttcaaatgttatggtggttggtaaatcatgtacagttgttcctcttgatggtaaactaagattgtgtcaatttctgtcgttagGTGGAACCCGGATGCAATTGTATTCAACTCCTTTCAGCTCTATGGAACTCCTAGCTATTGGGTGCAACTATTTTTCTCAGAGTCAAGTGGAGCAACACTT
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA03G27460.2 (Glycine max), 3'ss of exon 14
-gtatc-tctcacttacttttccgttcgaatggttactcaggaagataaggcaataatctcaaattgttaaattggtttc------------------agGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
||| | | | | | ||| |||||||| | | || | | || | |||| | | | ||||||||||| |||||||| || |||||||||| ||| || |||||||| |||||||||||||| ||| ||||| ||||||| || |||||||| |||
agtaaaatgttttcaattctaatgttaaggtggttactaaaatatgtagaattgttcctcctgatggctaaactaatattgtgtcaatttctgtcattagGTGGAACCCAGATGCAATTGTATTCAACTCCTTTCAGCTCTATGGAACTCCTAGCTATTGGGTGCAAGTATTTTTCTCAGAGTCGAGTGGAGCAACACTT
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA19G30470.1 (Glycine max), 3'ss of exon 16
--------------------------------------------------------------------------------------------------------gtatctctcacttacttttccgttcgaatggttactcaggaagataaggcaataatctcaaattgttaaattggtttcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
| | || | || | || |||| || | | || | ||| || | | |||||||||| |||||||| || || || ||| |||| |||||||||| |||||||||||||| || | ||| |||||||| |||||||| ||
gtatgcacttttaccataaaatttctatcatctctccctcttttcccataaatctatagaataagaatgctacatctgtaaatggtactcaaatttccaaaatgccaagataggtggatttataaattaagacaattgctcatgatggccacattgagatgtatcattttttctctcttcatagGTGGAACCGGGATGCAATTGTTTTTAATTCCAATCATGTATATGGAACTCCTAGCTATTGGGTGCAGTTTATGTTTAGAGAGTCAAATGGAGCAACATTT
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: PP1S317_21V6.1 (Physcomitrella patens), 3'ss of exon 14
--------------------gtatctctcacttacttttccgttcgaatggttactcag--gaagataaggcaataatctcaaattgttaaattggtt-tcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
|||| ||| | ||| |||| | | || ||| |||| | || | | || |||| ||| |||||||| |||||||| ||||||||||||| || | ||||| ||||| ||||| |||||||||| ||||| | || | ||| || ||
tacagaaggtgaaggtcatcatatccctcgtggaac---acgtatgaattgaaatgaagaggaatgtaagctgagaaaactagctggtctgtgtggtgaccagATGGAACCCCGATGCAATTGTCTTCAACTCCTGGCAACAGTATGGGACACCCAGCTACTGGGTTCAACAATTTTTCAAGAAATCCAACGGCGCCTACCTCMapped 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|125287444|gb|EL301529.1|EL301529EST: GTTGAAATGGCAAGTTATGCTCCACTCTTTGTGAACACAAATGATAGACG GTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTA
genomic: GTTGAAATGGCAAGTTATGCTCCACTCTTTGTGAACACAAATGATAGACGgtatctctca ... ttggtttcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatggttactcaggaagataaggcaataatctcaaattgttaaattggtttcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
aataatctcaaattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctctcacttacttttccgttcgaatggttactcaggaagataaggcaataatctcaaattgttaaattggtttcagGTGGAACCCTGATGCAATAGTCTTCAACTCCTCTCATCTATATGGAACACCTAGCTATTGGGTTCAACGGTTTTTTGCAGAGTCAAGCGGAGCAACTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA