Sequence
atgc intronic sequence ATGC exonic sequencegtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaatgttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G32150.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA01G01740.1 (Glycine max), 3'ss of exon 5
---------------------------------------gtgagttttctctgt-tatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaatgttttgg-----attcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
| ||| ||||| | | | || | | | | | || || || | || ||| | || | || ||||| || ||| | || || | |||||||||||| |||| | |||||||||||||||||||||||||||||||||||| ||||| ||||||||||
gtgagttttccccttttgtttttttgtgctcattctcaccttgtctttgtctgtcttttccctcttctgtgcaaaacttgttcttatccgagtaaggaaaaataatctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGTAAACCTCCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 6
-------------------------------gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaa---------------tgttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
|||||| || || |||| ||| | || | | | |||| | || | ||| || ||||| || ||| | || || | |||||| || || ||||| | |||||||||||||||||||||||||||||||||||| ||||| ||||||||||
gtgagtttttcttttgtttttttgtgctcattctcaccttctct-ttgtctctgtattttccctcttctgtgcagaacttgttcttatccaagtaaggaaaaataacctattagttttcatgcagGGAAACACTCCTGGCAGCATGGAAGCTGATGGCAAGCCTTCTGAGGTGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGTTTGGGTAGTTTGAATA
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G34280.1 (Glycine max), 3'ss of exon 6
------------------------------------------------------gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaatg------------ttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
| | | | | | ||||| | | | || | || | |||| | ||| | |||| || ||||| ||| | | | || || | || ||||||||| |||| | |||||||||||| || |||||||||||||||||||| | || |||
gtttgttctttagccttctgctttttttttcccctgctctgctctctgtctcttgcttgctcttttttacatcaccctgtattttctccttcctgttctgtattgtctttatccaagtaaaagtaacctacaattttacatgcagGGAAATGCCCCAGGCCGCATCGAAGTTGGTGGTAAACCTCCTGAAGTGAAGGAAAAATTACCTATCAAAAGATCAAAAGGAAGTGCTAGTGGTGGTAATT
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G34280.2 (Glycine max), 3'ss of exon 4
---------gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaat------------gttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
| | | | | | ||||| | | | || | || | |||| | ||| | |||| || ||||| ||| | | | || || | || ||||||||| |||| | |||||||||||| || |||||||||||||||||||| | || |||
ctgtctcttgcttgctcttttttacatcaccctgtattttctccttcctgttctgtattgtctttatccaagtaaaagtaacctacaattttacatgcagGGAAATGCCCCAGGCCGCATCGAAGTTGGTGGTAAACCTCCTGAAGTGAAGGAAAAATTACCTATCAAAAGATCAAAAGGAAGTGCTAGTGGTGGTAATT
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G15810.1 (Glycine max), 3'ss of exon 6
------------------------------------------------------gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaa-----------tgttttgg-attcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
|| ||| | | || |||| | | | || | || | | |||| ||| | | |||| | ||||| ||| | | || || || | || ||||||||| |||| |||||||||||| || |||||||||||||||||||| | | || |||
gtgagttctttagccttctgctttttcccccatgctctgcgctctgtcacttggttgctcttttttttttgtcaccctgtattttctccttcctgttttgtagtgtctttaaccaagtaaaagtaacctacgatttgacgtgcagGGAAATGCCCCAGGTAGCATCGAAGTTGGTGGTAAACCTCCTGAAATGAAGGAAAAATTACCTATCAAAAGATCAAAAGGAAGTGTTAGTGGTGGTAATT
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 6
gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgct----------tgaagaatgttttgga--------ttcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
||||||| | | || ||| | | | ||| |||| | || ||||| ||| | | |||| | ||| | || || | |||||||||| ||||||| || |||||||||||||| |||||||||||||||||||| ||||| ||||||||||
gtgagttaattaagctactgtatcatttggtctgctgctgagtagacatattctttttcatatggatctgtagaataacttgtaaattttcatgtagGGAACCACTCCGGGAAGCATGGAAGCTGATGGTAAATCATCTGAGGGTAAGGAAAAATTGCCCATCAAAAGATCAAAAGGAAGTTTGGGCAGTTTGAATAMapped 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|19876330|gb|AU237161.1|AU237161EST: CATATAGTCCCTATGCAATGCCTTCTCCTAATGGAATGGCTGAAGCTTCT GGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAG
genomic: CATATAGTCCCTATGCAATGCCTTCTCCTAATGGAATGGCTGAAGCTTCTgtgagttttc ... ttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattagagtatgggtcagatgggatcttgcttgaagaatgttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
aatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttttctctgttatcactgtttttattagagtatgggtcagatgggatcttgcttgaagaatgttttggattcagGGTAATACTGGAAGTGTTATTGAGGGTGATGGTAAACCATCTGATGGGAAGGAAAAATTGCCAATCAAAAGATCAAAAGGAAGCTTGGGAAGTTTGAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA