Sequence
atgc intronic sequence ATGC exonic sequencegtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G16370.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 3'ss of exon 7
--------gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
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gtaagtttttctctcgcccctacatacctatcgatgtaccaatctatctgtccatctaggtctctaaggactaaggactaactatttgta--acagATATACCGACATGCATGCTGACTATACTGGTAAAGGCTTTGATCAGCTAATGGATGTGATTGACAAGATCAAGAATAATCCTGACGATAGGCGAATTATC
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G139880_T01 (Zea mays), 3'ss of exon 6
gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
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----gtaagcttacattcctttccttgagctgta--tcttttttcttgttcatgttttctgataaag-----ttgacatatctgacagATATACTGACATGCATGCTGACTATACTGGAAAAGGCTTTGATCAGCTAATGGATGTGATTGACAAGATTAAGAACAATCCTGATGACCGCCGAATAATT
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 6
gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
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gtaagtggatgtgcctttatctttgtaagtcattaggctgcattttgtaggattgcttagttctgtatttctcatctacattttacagGTATACTGACATGCATGCTGACTACTCCGGCCAAGGATTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCACAATCCTGATGATCGAAGGATCATT
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 7
gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaa-----catctttctctt-----------gttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
|| | || | | | | | || |||| | | || | || |||| ||| ||| || || || | | || ||||| || || || || |||||| ||| || | |||||||| |||||||| ||| ||||||| ||| |||| || ||| | ||||||||||||||||| |||||
gtagggaaactatacctttttgttttttttttcctgttggtattacaatagattgttttgtgtggaattgctcaactctttattcgatgccttacattttatagATATACTGACATGCATCATGACTACTCCGGTCAAGGGTTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCTGATGATCGGCGAATTATT
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 7
gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
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gtaagtggatgtgcctttatctttgtaagtcattaggctgcatttcgtaggattgctcagctctgtatttctcatctacattttacagGTATACTGACATGCATGCTGACTACTCTGGCCAAGGATTTGATCAGCTTTTAGATGTTATTAACAAGATAAAGCATAATCCCAATGATCGAAGGATCATT
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 7
-------gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttt-tggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
| || ||||| | || | | | | | || || | ||| | | | || || || || || || || || |||||| ||| || | || ||||| |||||||||||| ||||||| ||| |||| || ||| ||||||||||||||||| || ||
gtaggggaactataccttttttttctgc-tggtattacaatagattgttttgtgaggaattgctcaactctttattcgctgccttacattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTTAGATGTTATTAACAAGATAAAGCGTAATCCTGATGATCGGCGAATCATT
upper sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 8
-------gtcagtaacttttcaatgcatatgt--tggttttttcttctctgttccgatggatttgttttggtgaaaca-tctttctct---------------------tgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
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gttcgtggattttattctttgaaagtttatgtggtggactctatttttctcgagtaaggattctgttttctcgaggtagtttttctccagttttaacctattgctcatatattttacagCTATATTGACATGCATGCTGACTATACTGGCCAAGGATTTGATCAGTTGTTAGATGTTATTAACAAGATCAAGAATAATCCGAATGATCGACGGATTATCMapped 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|125325349|gb|EL339429.1|EL339429EST: TTTCAATGGCGACACTTTGGTGCTAA GTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTAGATCAACTTG
genomic: TTTCAATGGCGACACTTTGGTGCTAAgtcagtaact ... tgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTT-GATCAACTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
catctttctcttgttt CT-rich tract
atttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttttggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC