Sequence
atgc intronic sequence ATGC exonic sequencegtaataataatcccattcaacagtctcctttttgttccttcagtattcatatcttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02290.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os11g41140.1 (Oryza sativa), 3'ss of exon 3
------------------------------gtaataataatcccattcaacagtctcctttttgttccttcagtattcatatct-tgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
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gttgattgaaaaaaaaaactgacatcaaatctgttgttagcaccatg-aacaatttatctgcctaagattttgtactaattcttacattatatctatgcagATTATACTTCTGAGAATCCTAGGATAGTAATGCAGTGCTCACATCATTTCCACCTTGGCTGTATTTATGAGTGGATGGAAAGAAGTGAAGCATGCCCTGT
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G468260_T02 (Zea mays), 3'ss of exon 2
---------------------------gtaataataatcccattcaacagtctcctttttgttccttcagtattcatatcttgttggtttt---ttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
| | | | | | || | | | ||| | | | |||| || || | ||||||| ||| || ||||| || | ||| || | | || |||||||||||||||||| | || ||||||||||||||||| |||||||| || || ||
gaacgaaaggtgttcaaaactatgagcattacattttttctgttgatactttataatcacattctcactattgttatatattaatgtaactaaattgcagATTATGATTCTGAGAATCCTAGGATAGTAATGCAGTGCTCACACCATTTCCACCTTGGCTGTATTTATGAGTGGATGGAAAGAAGTGAGGCATGCCCTGT
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G04340.1 (Glycine max), 3'ss of exon 3
------------------------------gtaataataatcccattcaac-agtctcctttttgttccttcagtattcatatcttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
|| || | | ||| || || | |||| ||| || || |||| || |||||||||| || |||||| |||||||| |||||||||| || || ||||| |||||| ||||||||||||||||||||||||||||||| |||||||||||
attaattggttgttgttgttgttgttggtagtggaaaacacactattaaaggagcaggatctttggagattcttactttctaaactgttt-ttgcttgcagAATACACTAAAGAGAATCCAAAGATAATGACAAAATGCTCTCATCATTTTCACCTTGGTTGCATTTATGAGTGGATGGAGAGAAGTGACAACTGTCCAGT
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G06840.1 (Glycine max), 3'ss of exon 2
-------------------------gtaataataatcccattcaa----cagtctcctttttgttccttcagtattcatatcttgttggtttt--ttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
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tgctgctattaacttgttgttggtagtggaaaacacactattagaagagcaggatctttggagattattct-tacttttcttcaactgtttttgcttgcagAATACACTAAAGAGAATCCAAAGATAATGACAAAATGCTCTCATCATTTTCACCTTGGTTGCATTTATGAGTGGATGGAGAGAAGTGACAACTGTCCTGT
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G50950.1 (Glycine max), 3'ss of exon 3
-----------------------------gtaataataatcccattcaacagtctcctttttgttccttcagtattcatatc--ttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT-
| | | | || | || | | | | ||| | || ||||| || |||||||||| || |||||| || ||||| ||||||||||| || || ||||| || ||| |||| ||||||||||||||||| |||||||| |||||||| ||
ggggtcgcctgctccgctccgtgatgacgggattgacaactatgga-agcaatataacctccacaattcttacatttgtttcaattgttt-ttgcttgcagaATACACTGAAGAGAATCCGAAGATAGTGACAAAATGCTCTCATCATTTTCATCTTTGTTGTATTTATGAGTGGATGGAAAGAAGTGACAACTGTCCCGTT
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G27730.1 (Glycine max), 3'ss of exon 3
-----------------------------gtaataataatcccattcaacagtct--cctttttgttccttcagtattcatatcttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
| | | | || || ||| ||| | | ||| || | | ||||| || |||||||||| || |||||| || ||||| ||||||||||| || || ||||| || ||| |||||||||||||||||||||| |||||||| | |||||| ||
ttcccagaatttgaacttgtgacctccatgactctgtgtcacaaggcagcaatctaacctccacgattcttacgtttgtttcaattgttt-ttgcttgcagAATACACTGAAGAGAATCCGAAGATAGTGACAAAATGCTCTCATCATTTTCATCTTGGTTGCATTTATGAGTGGATGGAAAGAAGTGACAGCTGTCCTGT
upper sequence: AT3G02290.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv14s0083g01000.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------gtaataataatcccattcaacagtctcct----ttttgttccttcagtattcatatcttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
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atcttgtcattattaggttgatgattctgttaactgtactcaaatattagaatgttttagggtatagattctgatttgttcata-cttatc--ttttatgcagAATATACTCCAGAAAATCCCAAGATAATGACAAAATGCTCTCACCATTTTCACCTTGGTTGTATATATGAATGGATGGAGAGAAGTGAAACATGTCCAGTMapped 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|86085496|gb|DR381255.1|DR381255EST: CATGTATATATTGTCTGAAGACGAAGATGTCTGCCCAACTTGTCTTGAAG AATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCC
genomic: CATGTATATATTGTCTGAAGACGAAGATGTCTGCCCAACTTGTCTTGAAGgtaataataa ... ttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaacagtctcctttttgttccttcagtattcatatcttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
ttttttgc CT-rich tract
tattcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataataatcccattcaacagtctcctttttgttccttcagtattcatatcttgttggttttttgcagAATATACATCAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT